Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 12 of 198
Found at i:3972847 original size:2 final size:2
Alignment explanation
Indices: 3972840--3972866 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3972830 TGCTCATGCT
3972840 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
3972867 CTGTTCAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3973270 original size:32 final size:33
Alignment explanation
Indices: 3973234--3973298 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
3973224 CTGGAATTTG
*
3973234 TTTATTTGTAATTTGTTAT-TTTTCTGTGTTTT
1 TTTATTTGTAATTTGTTATGTTTTCTGGGTTTT
3973266 TTTATTTGTAATTTGTTATGTTTTCTGGGTTTT
1 TTTATTTGTAATTTGTTATGTTTTCTGGGTTTT
3973299 GCTTATAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.61
33 12 0.39
ACGTcount: A:0.12, C:0.03, G:0.15, T:0.69
Consensus pattern (33 bp):
TTTATTTGTAATTTGTTATGTTTTCTGGGTTTT
Found at i:3976396 original size:43 final size:43
Alignment explanation
Indices: 3976343--3976434 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
3976333 AAAGTGCCGC
* * *
3976343 TAGCAGCGTTTGTGGAAAAAGCGTCGCTAAAAGTCCTGGTCTT
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAAGTCCTGGTCTT
* * *
3976386 TAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCCTGGTTTT
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAAGTCCTGGTCTT
3976429 TAGCGG
1 TAGCGG
3976435 TATTTTTTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAAGTCCTGGTCTT
Found at i:3980547 original size:2 final size:2
Alignment explanation
Indices: 3980540--3980587 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
3980530 GGATTCTAGG
3980540 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3980582 AT AT AT
1 AT AT AT
3980588 TTATCTTGTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3982382 original size:23 final size:23
Alignment explanation
Indices: 3982354--3982444 Score: 100
Period size: 23 Copynumber: 4.1 Consensus size: 23
3982344 TGTGAAACTT
3982354 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
* * * * *
3982377 TTCATA---ATGTGT-GTAACTT
1 TTCATATTCAAGTCTCTTCACTC
*
3982396 TTCATCTTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
3982419 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
3982442 TTC
1 TTC
3982445 TAACTTTTCA
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
19 9 0.17
20 4 0.08
22 4 0.08
23 35 0.67
ACGTcount: A:0.21, C:0.27, G:0.07, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:3982395 original size:42 final size:42
Alignment explanation
Indices: 3982341--3982424 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
3982331 CTATTCATGC
3982341 ATGTGTGAAACTTTTCATATTCAAGTCTCTTCACTCTTCATA
1 ATGTGTGAAACTTTTCATATTCAAGTCTCTTCACTCTTCATA
* *
3982383 ATGTGTGTAACTTTTCATCTTCAAGTCTCTTCACTCTTCATA
1 ATGTGTGAAACTTTTCATATTCAAGTCTCTTCACTCTTCATA
3982425 TTCAAGTCTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.44
Consensus pattern (42 bp):
ATGTGTGAAACTTTTCATATTCAAGTCTCTTCACTCTTCATA
Found at i:3983979 original size:46 final size:45
Alignment explanation
Indices: 3983873--3983996 Score: 198
Period size: 46 Copynumber: 2.8 Consensus size: 45
3983863 CATATGACCT
* *
3983873 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
3983916 CTTATCACTTTACCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
3983962 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
3983997 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 3 0.04
45 21 0.28
46 42 0.57
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (45 bp):
CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:3984000 original size:37 final size:37
Alignment explanation
Indices: 3983958--3984097 Score: 235
Period size: 37 Copynumber: 3.8 Consensus size: 37
3983948 AGCTGAAGCT
* **
3983958 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
3983995 GCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
3984032 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
3984069 ATCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
3984098 AGTACTCAAA
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:3992314 original size:37 final size:37
Alignment explanation
Indices: 3992263--3992402 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
3992253 AGCTGAAGCT
* **
3992263 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
3992300 GCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
3992337 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
3992374 ACCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
3992403 AGTACTCAAA
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:3996704 original size:21 final size:21
Alignment explanation
Indices: 3996680--3996721 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
3996670 CATTCTCCTT
*
3996680 GCATCTTCA-CCTCTTTCACGA
1 GCAT-TTCAGCCTCTTCCACGA
*
3996701 GCATTTGAGCCTCTTCCACGA
1 GCATTTCAGCCTCTTCCACGA
3996722 CCACAATCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.19, C:0.36, G:0.14, T:0.31
Consensus pattern (21 bp):
GCATTTCAGCCTCTTCCACGA
Found at i:3997734 original size:23 final size:23
Alignment explanation
Indices: 3997706--3997754 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
3997696 TGTGTAACTT
3997706 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
3997729 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
3997752 TTC
1 TTC
3997755 TAACTTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.31, G:0.04, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:3998655 original size:6 final size:6
Alignment explanation
Indices: 3998644--3998676 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
3998634 CATATTTTAA
3998644 TATAAT TATAAT TATAAT TATAAT TATATAT TA
1 TATAAT TATAAT TATAAT TATAAT TATA-AT TA
3998677 ATAGAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 22 0.85
7 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TATAAT
Found at i:4001532 original size:24 final size:23
Alignment explanation
Indices: 4001493--4001538 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
4001483 AGACTCATTG
*
4001493 GAAATTTTGTTATTTTTATTTTTA
1 GAAATTTAGTTA-TTTTATTTTTA
*
4001517 GAAATTTAGTTCTTTTATTTTT
1 GAAATTTAGTTATTTTATTTTT
4001539 TTTTTCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.24, C:0.02, G:0.09, T:0.65
Consensus pattern (23 bp):
GAAATTTAGTTATTTTATTTTTA
Found at i:4001754 original size:22 final size:22
Alignment explanation
Indices: 4001728--4001797 Score: 62
Period size: 22 Copynumber: 3.5 Consensus size: 22
4001718 GTAATATTCT
4001728 TAAAATAATATTTATTATTTTA
1 TAAAATAATATTTATTATTTTA
* *
4001750 TAAAATAA-A---A-TACTCT-
1 TAAAATAATATTTATTATTTTA
* *
4001766 TAAAATAATATTTATTGTCTTA
1 TAAAATAATATTTATTATTTTA
4001788 TAAAATAATA
1 TAAAATAATA
4001798 AAATTTTGGT
Statistics
Matches: 36, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
16 8 0.22
17 5 0.14
18 1 0.03
20 1 0.03
21 3 0.08
22 18 0.50
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (22 bp):
TAAAATAATATTTATTATTTTA
Found at i:4001767 original size:38 final size:38
Alignment explanation
Indices: 4001720--4001795 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
4001710 TTTTAATAGT
* *
4001720 AATATTCTTAAAATAATATTTATTATTTTATAAAATAA
1 AATACTCTTAAAATAATATTTATTATCTTATAAAATAA
*
4001758 AATACTCTTAAAATAATATTTATTGTCTTATAAAATAA
1 AATACTCTTAAAATAATATTTATTATCTTATAAAATAA
4001796 TAAAATTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (38 bp):
AATACTCTTAAAATAATATTTATTATCTTATAAAATAA
Found at i:4003945 original size:27 final size:26
Alignment explanation
Indices: 4003907--4003963 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
4003897 AAATCCCAAA
* *
4003907 TTTTCTTTCTTTCCTTCCCT-TTTTCT
1 TTTTCTTTCTTT-CTCCCCTGTTTTCG
4003933 TTTTCTTTCCTTTCTCCCCTGTTTTCG
1 TTTTCTTT-CTTTCTCCCCTGTTTTCG
4003960 TTTT
1 TTTT
4003964 GCTATTATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.00, C:0.30, G:0.04, T:0.67
Consensus pattern (26 bp):
TTTTCTTTCTTTCTCCCCTGTTTTCG
Found at i:4004029 original size:5 final size:5
Alignment explanation
Indices: 4004019--4004082 Score: 121
Period size: 5 Copynumber: 13.0 Consensus size: 5
4004009 TCTTTTTATT
4004019 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
4004069 ATATA ATAT- ATATA
1 ATATA ATATA ATATA
4004083 CTTAACTTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.07
5 54 0.93
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:4016146 original size:15 final size:14
Alignment explanation
Indices: 4016122--4016160 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
4016112 TTTTTATCTC
4016122 AAAAAAAAATAAAG
1 AAAAAAAAATAAAG
*
4016136 AAAAAAGAAATAAAT
1 AAAAAA-AAATAAAG
4016151 AAATAAAAAA
1 AAA-AAAAAA
4016161 CTAGAAGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 6 0.27
15 13 0.59
16 3 0.14
ACGTcount: A:0.85, C:0.00, G:0.05, T:0.10
Consensus pattern (14 bp):
AAAAAAAAATAAAG
Found at i:4019494 original size:53 final size:53
Alignment explanation
Indices: 4019409--4019514 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
4019399 ATTATAAAAA
*
4019409 TATAATTTAAGTAACCTCAGGCAATTCATTTGAGGGTTCTAACCCAAAACACC
1 TATAATTTAAGTAACCTCAGGCAATTCATTTGAGGGTTCTAAACCAAAACACC
* *
4019462 TATAGTTTAAGTAACCTCAGGCAATTCATTTGAGGGTTCTAAACCAGAACACC
1 TATAATTTAAGTAACCTCAGGCAATTCATTTGAGGGTTCTAAACCAAAACACC
4019515 ATTCCTCTCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (53 bp):
TATAATTTAAGTAACCTCAGGCAATTCATTTGAGGGTTCTAAACCAAAACACC
Found at i:4026972 original size:13 final size:13
Alignment explanation
Indices: 4026932--4026982 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
4026922 TTCTTCATTA
4026932 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
4026945 -TTGTGGAAAAATG
1 CTT-TTGAAAAGTG
*
4026958 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
4026971 CTTTTGAAAAGT
1 CTTTTGAAAAGT
4026983 TTGGTTTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
12 2 0.07
13 26 0.87
14 2 0.07
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.37
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:4027809 original size:21 final size:22
Alignment explanation
Indices: 4027760--4027807 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
4027750 GTAAATTGGT
4027760 CATTTCTGTTAAAATTTTTATC
1 CATTTCTGTTAAAATTTTTATC
4027782 CATTTCTGTTAAAATTTTTATC
1 CATTTCTGTTAAAATTTTTATC
4027804 CATT
1 CATT
4027808 CTTACTACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.04, T:0.54
Consensus pattern (22 bp):
CATTTCTGTTAAAATTTTTATC
Found at i:4028578 original size:41 final size:41
Alignment explanation
Indices: 4028513--4028706 Score: 214
Period size: 41 Copynumber: 4.7 Consensus size: 41
4028503 TTTTAAACCT
* *
4028513 TTAGCGGTGTTTTTGTCTAAGCGCCGCTAATGCTC-GTATCA
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGT-TCA
* * * * *
4028554 TTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGTTCT
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGTTCA
*
4028595 TTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC-GTATCA
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGT-TCA
* * * * *
4028636 TTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGTTCT
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGTTCA
*
4028677 TTAGCGGCATTTTT-TGCTAAGCGCCGCTAA
1 TTAGCGGCGTTTTTAT-CTAAGCGCCGCTAA
4028707 AGTTCGTGTT
Statistics
Matches: 126, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
40 3 0.02
41 119 0.94
42 4 0.03
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (41 bp):
TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGTTCA
Found at i:4028648 original size:82 final size:82
Alignment explanation
Indices: 4028511--4028706 Score: 358
Period size: 82 Copynumber: 2.4 Consensus size: 82
4028501 TTTTTTAAAC
*
4028511 CTTTAGCGGTGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
4028576 GCCACTAATTCTCTGTT
66 GCCACTAATTCTCTGTT
4028593 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
4028658 GCCACTAATTCTCTGTT
66 GCCACTAATTCTCTGTT
*
4028675 CTTTAGCGGCATTTTT-TGCTAAGCGCCGCTAA
1 CTTTAGCGGCGTTTTTGT-CTAAGCGCCGCTAA
4028707 AGTTCGTGTT
Statistics
Matches: 111, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
81 1 0.01
82 110 0.99
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (82 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
GCCACTAATTCTCTGTT
Found at i:4029039 original size:82 final size:81
Alignment explanation
Indices: 4028845--4029021 Score: 318
Period size: 82 Copynumber: 2.2 Consensus size: 81
4028835 TTGTACTCTA
*
4028845 TTAGTGGCGTTTTAAGGGAAAACGCCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
1 TTAGTGGCGTTTTAA-GGTAAACGCCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
*
4028910 TTTCTGTAATTGAAAAT
65 TTTCTGTAATTGAAAAG
4028927 TTAGTGGCGTTTTAAGGTAAAACGCCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
1 TTAGTGGCGTTTTAAGGT-AAACGCCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
4028992 TTTCTGTAATTGAAAAG
65 TTTCTGTAATTGAAAAG
4029009 TTAGTGGCGTTTT
1 TTAGTGGCGTTTT
4029022 TTCCGGTAGC
Statistics
Matches: 92, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
81 2 0.02
82 90 0.98
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (81 bp):
TTAGTGGCGTTTTAAGGTAAACGCCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTCT
TTCTGTAATTGAAAAG
Found at i:4030028 original size:8 final size:9
Alignment explanation
Indices: 4030014--4030057 Score: 54
Period size: 10 Copynumber: 4.7 Consensus size: 9
4030004 TATTTTTACT
4030014 TATATATTGA
1 TATATA-TGA
4030024 TATATATGAA
1 TATATATG-A
4030034 TATATATGGA
1 TATATAT-GA
4030044 TATATAT-A
1 TATATATGA
4030052 TATATA
1 TATATA
4030058 GTTATTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 7 0.22
9 2 0.06
10 22 0.69
11 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (9 bp):
TATATATGA
Found at i:4030163 original size:27 final size:27
Alignment explanation
Indices: 4030122--4030173 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
4030112 AATAAACAAA
* *
4030122 TAAATAAGTTAGTAATTATTTATTTGT
1 TAAATAAATTAGTAATTAATTATTTGT
*
4030149 TAAATAAATTGGTAATTAATTATTT
1 TAAATAAATTAGTAATTAATTATTT
4030174 AAAAGTAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (27 bp):
TAAATAAATTAGTAATTAATTATTTGT
Found at i:4032711 original size:29 final size:29
Alignment explanation
Indices: 4032677--4032747 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
4032667 TACTTCAAAT
4032677 TAATGAATAATTATCGATCTTAACTTACA
1 TAATGAATAATTATCGATCTTAACTTACA
*
4032706 TAATGACTAATTATCGATCTTAACTTACA
1 TAATGAATAATTATCGATCTTAACTTACA
4032735 TAATGAATAATTA
1 TAATGAATAATTA
4032748 AAATTATATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (29 bp):
TAATGAATAATTATCGATCTTAACTTACA
Found at i:4033013 original size:9 final size:9
Alignment explanation
Indices: 4032995--4033886 Score: 97
Period size: 9 Copynumber: 105.1 Consensus size: 9
4032985 CTTATATTTA
*
4032995 AACTTTCAT
1 AACTTACAT
4033004 AACTTACAT
1 AACTTACAT
*
4033013 AA-TAACAT
1 AACTTACAT
4033021 ATGGACTTACAT
1 A---ACTTACAT
*
4033033 TA--TACAT
1 AACTTACAT
* *
4033040 AGCATACAT
1 AACTTACAT
4033049 AACTTACAT
1 AACTTACAT
*
4033058 AA--TACAA
1 AACTTACAT
4033065 AACTTACAT
1 AACTTACAT
*
4033074 AACTTAAAT
1 AACTTACAT
* *
4033083 ATCTTACAC
1 AACTTACAT
*
4033092 AACTTACAC
1 AACTTACAT
*
4033101 AACTTAAAT
1 AACTTACAT
* *
4033110 AATTTAAAT
1 AACTTACAT
4033119 AACTTACAT
1 AACTTACAT
4033128 AA--TACAT
1 AACTTACAT
*
4033135 AATATGATACAT
1 AA-CT--TACAT
4033147 AAAC-TACATT
1 -AACTTACA-T
*
4033157 AATATGATACAT
1 AA-CT--TACAT
*
4033169 AAATTACAT
1 AACTTACAT
4033178 AACTTA-ATT
1 AACTTACA-T
4033187 AA-TTA-AT
1 AACTTACAT
4033194 -A--TACAT
1 AACTTACAT
*
4033200 AAGTTACAT
1 AACTTACAT
**
4033209 AACTTAGTT
1 AACTTACAT
4033218 AA-TTA-AT
1 AACTTACAT
4033225 -A--TACAT
1 AACTTACAT
*
4033231 AAGTTACAT
1 AACTTACAT
4033240 AACTTA-ATT
1 AACTTACA-T
4033249 AA-TTA-AT
1 AACTTACAT
4033256 -A--TACAT
1 AACTTACAT
*
4033262 AAGTTACATT
1 AACTTACA-T
4033272 AA-TTA-ATT
1 AACTTACA-T
4033280 AA-TATACAT
1 AACT-TACAT
*
4033289 AAATTACAT
1 AACTTACAT
4033298 AACTTA-ATT
1 AACTTACA-T
4033307 AA-TTA-AT
1 AACTTACAT
4033314 -A--TACAT
1 AACTTACAT
*
4033320 AAGTTACAT
1 AACTTACAT
**
4033329 AACTTAGTT
1 AACTTACAT
4033338 AA-TTA-AT
1 AACTTACAT
4033345 -A--TACAT
1 AACTTACAT
*
4033351 AAGTTACAT
1 AACTTACAT
4033360 AACTTA-ATT
1 AACTTACA-T
4033369 AA-TTA-AT
1 AACTTACAT
4033376 -A--TACAT
1 AACTTACAT
*
4033382 AAGTTACATT
1 AACTTACA-T
4033392 AA-TTA-ATT
1 AACTTACA-T
4033400 AA-TATACAT
1 AACT-TACAT
*
4033409 AAATTACATT
1 AACTTACA-T
*
4033419 AATATGATACAT
1 AA-CT--TACAT
*
4033431 AAATTACAT
1 AACTTACAT
4033440 AACTTA-ATT
1 AACTTACA-T
4033449 AA-TTA-AT
1 AACTTACAT
4033456 -A--TACAT
1 AACTTACAT
*
4033462 AAGTTACAT
1 AACTTACAT
**
4033471 AACTTAGTT
1 AACTTACAT
4033480 AA-TTA-AT
1 AACTTACAT
4033487 -A--TACAT
1 AACTTACAT
*
4033493 AAGTTACAT
1 AACTTACAT
4033502 AACTTA-ATT
1 AACTTACA-T
4033511 AA-TTA-AT
1 AACTTACAT
4033518 -A--TACAT
1 AACTTACAT
4033524 AACTTACAT
1 AACTTACAT
4033533 AACTTACATT
1 AACTTACA-T
*
4033543 AATATGATACAT
1 AA-CT--TACAT
* *
4033555 AAATTACAAA
1 AACTTAC-AT
* *
4033565 AAATTGC--
1 AACTTACAT
4033572 AA-TTA-AT
1 AACTTACAT
*
4033579 -ATTATACATAT
1 AACT-TAC--AT
4033590 AACTTAC--
1 AACTTACAT
4033597 AACTTACAT
1 AACTTACAT
4033606 AACTTAC--
1 AACTTACAT
*
4033613 AACTTAAAT
1 AACTTACAT
4033622 AACTTACAT
1 AACTTACAT
4033631 AACTTACATT
1 AACTTACA-T
***
4033641 TTTTTA-AT
1 AACTTACAT
*
4033649 TA-TT-CAT
1 AACTTACAT
*
4033656 AAATTACAT
1 AACTTACAT
4033665 AACTTA-AT
1 AACTTACAT
* *
4033673 TAGTTA-AT
1 AACTTACAT
4033681 -A--TACAT
1 AACTTACAT
*
4033687 AAATTACAT
1 AACTTACAT
4033696 AACTTA-ATT
1 AACTTACA-T
4033705 AA-TTAC-T
1 AACTTACAT
*
4033712 CAGTATTATACAT
1 -A--ACT-TACAT
*
4033725 AAATTACAT
1 AACTTACAT
**
4033734 AACTTAGTT
1 AACTTACAT
4033743 AA-TTA-AT
1 AACTTACAT
**
4033750 -GTTATACAT
1 AACT-TACAT
4033759 AACTTAC--
1 AACTTACAT
4033766 AACTTACAT
1 AACTTACAT
4033775 AACTTACAAT
1 AACTTAC-AT
***
4033785 TTTTTA-AT
1 AACTTACAT
* *
4033793 TA-TT-CGT
1 AACTTACAT
*
4033800 AAATTACAT
1 AACTTACAT
*
4033809 AACTTACTT
1 AACTTACAT
* *
4033818 AATTTTCAT
1 AACTTACAT
*
4033827 AA--TAAAT
1 AACTTACAT
4033834 AACTTACAT
1 AACTTACAT
4033843 AACTTAC--
1 AACTTACAT
4033850 AACTTACAT
1 AACTTACAT
* *
4033859 AACTTATAC
1 AACTTACAT
* *
4033868 GACATACAT
1 AACTTACAT
4033877 AACTTACAT
1 AACTTACAT
4033886 A
1 A
4033887 GCATAATTTG
Statistics
Matches: 676, Mismatches: 87, Indels: 240
0.67 0.09 0.24
Matches are distributed among these distances:
5 20 0.03
6 32 0.05
7 85 0.13
8 86 0.13
9 360 0.53
10 37 0.05
11 16 0.02
12 25 0.04
13 15 0.02
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (9 bp):
AACTTACAT
Found at i:4033055 original size:25 final size:25
Alignment explanation
Indices: 4033025--4033079 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
4033015 TAACATATGG
* * *
4033025 ACTTACATTATACATAGCATACATA
1 ACTTACATAATACAAAACATACATA
*
4033050 ACTTACATAATACAAAACTTACATA
1 ACTTACATAATACAAAACATACATA
4033075 ACTTA
1 ACTTA
4033080 AATATCTTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (25 bp):
ACTTACATAATACAAAACATACATA
Found at i:4033198 original size:31 final size:31
Alignment explanation
Indices: 4033163--4033749 Score: 601
Period size: 31 Copynumber: 19.0 Consensus size: 31
4033153 CATTAATATG
4033163 ATACATAAATTACATAACTTAATTAATTAAT
1 ATACATAAATTACATAACTTAATTAATTAAT
* *
4033194 ATACATAAGTTACATAACTTAGTTAATTAAT
1 ATACATAAATTACATAACTTAATTAATTAAT
*
4033225 ATACATAAGTTACATAACTTAATTAATTAAT
1 ATACATAAATTACATAACTTAATTAATTAAT
*
4033256 ATACATAAGTTAC---A-TTAATTAATTAAT
1 ATACATAAATTACATAACTTAATTAATTAAT
4033283 ATACATAAATTACATAACTTAATTAATTAAT
1 ATACATAAATTACATAACTTAATTAATTAAT
* *
4033314 ATACATAAGTTACATAACTTAGTTAATTAAT
1 ATACATAAATTACATAACTTAATTAATTAAT
*
4033345 ATACATAAGTTACATAACTTAATTAATTAAT
1 ATACATAAATTACATAACTTAATTAATTAAT
*
4033376 ATACATAAGTTAC---A-TTAATTAATTAAT
1 ATACATAAATTACATAACTTAATTAATTAAT
*
4033403 ATACATAAATTAC---A-TTAA-T-A-T--G
1 ATACATAAATTACATAACTTAATTAATTAAT
4033425 ATACATAAATTACATAACTTAATTAATTAAT
1 ATACATAAATTACATAACTTAATTAATTAAT
* *
4033456 ATACATAAGTTACATAACTTAGTTAATTAAT
1 ATACATAAATTACATAACTTAATTAATTAAT
*
4033487 ATACATAAGTTACATAACTTAATTAATTAAT
1 ATACATAAATTACATAACTTAATTAATTAAT
*
4033518 ATACATAACTTACATAACTTACATTAA-T-AT
1 ATACATAAATTACATAACTTA-ATTAATTAAT
* * *
4033548 GATACATAAATTACAAAAAATTGCAATTAA-TATT
1 -ATACATAAATTAC-ATAACTT--AATTAATTAAT
4033582 ATACATATAACTTAC--AACTTACA-TAACTTACA-
1 ATACATA-AA-TTACATAACTTA-ATTAA-TTA-AT
* * **
4033614 ACTTAAATAACTTACATAACTTACATTTTTTTAATT
1 A--TACATAAATTACATAACTTA-A-TTAATTAA-T
* *
4033650 ATTCATAAATTACATAACTTAATTAGTTAAT
1 ATACATAAATTACATAACTTAATTAATTAAT
4033681 ATACATAAATTACATAACTTAATTAATTACTCAGTATT
1 ATACATAAATTACATAACTTAATTAA-T--T-A--A-T
*
4033719 ATACATAAATTACATAACTTAGTTAATTAAT
1 ATACATAAATTACATAACTTAATTAATTAAT
4033750 GTTATACATA
Statistics
Matches: 484, Mismatches: 32, Indels: 80
0.81 0.05 0.13
Matches are distributed among these distances:
22 13 0.03
24 1 0.00
25 2 0.00
26 5 0.01
27 56 0.12
28 3 0.01
29 1 0.00
30 7 0.01
31 276 0.57
32 29 0.06
33 15 0.03
34 37 0.08
35 9 0.02
36 2 0.00
37 2 0.00
38 26 0.05
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.39
Consensus pattern (31 bp):
ATACATAAATTACATAACTTAATTAATTAAT
Found at i:4033287 original size:120 final size:120
Alignment explanation
Indices: 4033163--4033709 Score: 647
Period size: 120 Copynumber: 4.5 Consensus size: 120
4033153 CATTAATATG
* *
4033163 ATACATAAATTACATAACTTAATTAATTAATATACATAAGTTACATAACTTAGTTAATTAATATA
1 ATACATAAATTACATAACTTAATTAATTAATATACATAAATTACATAACTTAATTAATTAATATA
4033228 CATAAGTTACATAACTTAATTAATTAATATACATAAGTTACATTAATTAATTAAT
66 CATAAGTTACATAACTTAATTAATTAATATACATAAGTTACATTAATTAATTAAT
* *
4033283 ATACATAAATTACATAACTTAATTAATTAATATACATAAGTTACATAACTTAGTTAATTAATATA
1 ATACATAAATTACATAACTTAATTAATTAATATACATAAATTACATAACTTAATTAATTAATATA
4033348 CATAAGTTACATAACTTAATTAATTAATATACATAAGTTACATTAATTAATTAAT
66 CATAAGTTACATAACTTAATTAATTAATATACATAAGTTACATTAATTAATTAAT
*
4033403 ATACATAAATTAC---A-TTAA-T-A-T--GATACATAAATTACATAACTTAATTAATTAATATA
1 ATACATAAATTACATAACTTAATTAATTAATATACATAAATTACATAACTTAATTAATTAATATA
*
4033459 CATAAGTTACATAACTTAGTTAATTAATATACATAAGTTACATAACTTAATTAATTAAT
66 CATAAGTTACATAACTTAATTAATTAATATACATAAGTTAC---A-TTAATTAATTAAT
* * *
4033518 ATACATAACTTACATAACTTACATTAA-T-ATGATACATAAATTACAAAAAATTGCAATTAATAT
1 ATACATAAATTACATAACTTA-ATTAATTAAT-ATACATAAATTAC-ATAACTT--AATT-A-A-
* * * *
4033581 TATACATATAACTTACAACTTACATAACTTACAACTTAAATAACT-TACATAACTTACATT--TT
58 T-TA-ATAT-AC--ATAAGTTACATAACTT--AA-TTAATTAA-TATACATAAGTTACATTAATT
*
4033643 -TTTAATT
114 AATTAA-T
* *
4033650 ATTCATAAATTACATAACTTAATTAGTTAATATACATAAATTACATAACTTAATTAATTA
1 ATACATAAATTACATAACTTAATTAATTAATATACATAAATTACATAACTTAATTAATTA
4033710 CTCAGTATTA
Statistics
Matches: 377, Mismatches: 19, Indels: 57
0.83 0.04 0.13
Matches are distributed among these distances:
111 72 0.19
113 1 0.00
114 2 0.01
115 26 0.07
116 4 0.01
117 1 0.00
118 1 0.00
119 3 0.01
120 134 0.36
121 1 0.00
122 2 0.01
124 13 0.03
125 7 0.02
126 1 0.00
127 5 0.01
128 2 0.01
129 5 0.01
130 1 0.00
131 15 0.04
132 40 0.11
133 4 0.01
134 2 0.01
135 15 0.04
137 1 0.00
138 18 0.05
139 1 0.00
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.39
Consensus pattern (120 bp):
ATACATAAATTACATAACTTAATTAATTAATATACATAAATTACATAACTTAATTAATTAATATA
CATAAGTTACATAACTTAATTAATTAATATACATAAGTTACATTAATTAATTAAT
Found at i:4033609 original size:16 final size:16
Alignment explanation
Indices: 4033588--4033639 Score: 77
Period size: 16 Copynumber: 3.1 Consensus size: 16
4033578 TATTATACAT
4033588 ATAACTTACAACTTAC
1 ATAACTTACAACTTAC
*
4033604 ATAACTTACAACTTAA
1 ATAACTTACAACTTAC
4033620 ATAACTTACATAACTTAC
1 ATAACTTAC--AACTTAC
4033638 AT
1 AT
4033640 TTTTTTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 24 0.75
18 8 0.25
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAACTTACAACTTAC
Found at i:4033775 original size:16 final size:16
Alignment explanation
Indices: 4033754--4033884 Score: 70
Period size: 16 Copynumber: 7.8 Consensus size: 16
4033744 ATTAATGTTA
4033754 TACATAACTTACAACT
1 TACATAACTTACAACT
4033770 TACATAACTTACAA-T
1 TACATAACTTACAACT
*** *
4033785 TTTTTAA-TTATTCGTAAAT
1 TACATAACTTA--C--AACT
*
4033804 TACATAACTTACTTAATT
1 TACATAACTTAC--AACT
* * *
4033822 TTCATAA-TAAATAACT
1 TACATAACT-TACAACT
4033838 TACATAACTTACAACT
1 TACATAACTTACAACT
* *
4033854 TACATAACTTATACGACA
1 TACATAAC-T-TACAACT
4033872 TACATAACTTACA
1 TACATAACTTACA
4033885 TAGCATAATT
Statistics
Matches: 87, Mismatches: 18, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
14 3 0.03
15 5 0.06
16 40 0.46
17 4 0.05
18 27 0.31
19 5 0.06
20 3 0.03
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.37
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:4040202 original size:43 final size:43
Alignment explanation
Indices: 4040155--4040330 Score: 248
Period size: 43 Copynumber: 4.1 Consensus size: 43
4040145 AAAGCGCCGA
*
4040155 TAAAGACCCTGATCTATAGCGGCGCTTTGCGCAAAAACGCTAC
1 TAAAGACCCTGATCTATAGCGGCGCTTTGCGCAAAAACGCCAC
* * *
4040198 TAAAGACCCTGATCTATAGCGGCACTTTTAC-CAAAAACGCCGC
1 TAAAGACCCTGATCTATAGCGGCGC-TTTGCGCAAAAACGCCAC
*
4040241 TAAAGACCCTGATCTATAGCGGCGCTTAGCGCAAAAACGCCAC
1 TAAAGACCCTGATCTATAGCGGCGCTTTGCGCAAAAACGCCAC
* * *
4040284 TAAAGACCTTGATCTATAGCGGCGCTTTTAC-CAAAAACGCCGC
1 TAAAGACCCTGATCTATAGCGGCGC-TTTGCGCAAAAACGCCAC
4040327 TAAA
1 TAAA
4040331 TGTATTAGTC
Statistics
Matches: 118, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
42 3 0.03
43 108 0.92
44 7 0.06
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.20
Consensus pattern (43 bp):
TAAAGACCCTGATCTATAGCGGCGCTTTGCGCAAAAACGCCAC
Found at i:4040273 original size:86 final size:86
Alignment explanation
Indices: 4040144--4040330 Score: 320
Period size: 86 Copynumber: 2.2 Consensus size: 86
4040134 CGTTTTTAGT
* * * *
4040144 AAAAGCGCCGATAAAGACCCTGATCTATAGCGGCGCTTTGCGCAAAAACGCTACTAAAGACCCTG
1 AAAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTAGCGCAAAAACGCCACTAAAGACCCTG
4040209 ATCTATAGCGGCACTTTTACC
66 ATCTATAGCGGCACTTTTACC
*
4040230 AAAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTAGCGCAAAAACGCCACTAAAGACCTTG
1 AAAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTAGCGCAAAAACGCCACTAAAGACCCTG
*
4040295 ATCTATAGCGGCGCTTTTACC
66 ATCTATAGCGGCACTTTTACC
4040316 AAAAACGCCGCTAAA
1 AAAAACGCCGCTAAA
4040331 TGTATTAGTC
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 95 1.00
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.19
Consensus pattern (86 bp):
AAAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTAGCGCAAAAACGCCACTAAAGACCCTG
ATCTATAGCGGCACTTTTACC
Found at i:4040837 original size:22 final size:22
Alignment explanation
Indices: 4040777--4040834 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
4040767 AATCTTCAAG
4040777 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
4040796 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
4040818 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
4040835 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:4041508 original size:23 final size:26
Alignment explanation
Indices: 4041454--4041502 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
4041444 GTTATAATAT
*
4041454 ATATATATATTTATTTTCATAAATGC
1 ATATATATATTTATGTTCATAAATGC
4041480 ATTATATATATTT-TGTT-ATAAAT
1 A-TATATATATTTATGTTCATAAAT
4041503 TCTATAGTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 6 0.29
26 4 0.19
27 11 0.52
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (26 bp):
ATATATATATTTATGTTCATAAATGC
Found at i:4050607 original size:50 final size:50
Alignment explanation
Indices: 4050547--4050649 Score: 190
Period size: 50 Copynumber: 2.1 Consensus size: 50
4050537 TCAAACACAA
4050547 AGACTTAATTGGGATAAAAGAAAACTCAAATACCG-AAGTAAATCATGTAT
1 AGACTTAATTGGGATAAAAGAAAACTCAAATA-CGAAAGTAAATCATGTAT
4050597 AGACTTAATTGGGATAAAAGAAAACTCAAATACGAAAGTAAATCATGTAT
1 AGACTTAATTGGGATAAAAGAAAACTCAAATACGAAAGTAAATCATGTAT
4050647 AGA
1 AGA
4050650 ATTGAGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
49 2 0.04
50 50 0.96
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.23
Consensus pattern (50 bp):
AGACTTAATTGGGATAAAAGAAAACTCAAATACGAAAGTAAATCATGTAT
Found at i:4055800 original size:38 final size:35
Alignment explanation
Indices: 4055702--4055802 Score: 87
Period size: 39 Copynumber: 2.7 Consensus size: 35
4055692 GACCCGGCCC
*
4055702 ATATTTGATTAAAAATAAAAATATATATTTAATAT
1 ATATTTGATTAAAAATAAAAATATATATTTAAAAT
* *
4055737 ATAATTCAGATTAAAAGTCTAAAAA-ATATATTTAATAGAAAGT
1 AT-ATT-TGATTAAAA--ATAAAAATATATA-TT--TA-AAA-T
4055780 ATATTTGATTAAAAATAAAAATA
1 ATATTTGATTAAAAATAAAAATA
4055803 AAAATAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
35 2 0.04
36 3 0.06
37 8 0.16
38 5 0.10
39 14 0.27
40 1 0.02
41 10 0.20
42 5 0.10
43 3 0.06
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (35 bp):
ATATTTGATTAAAAATAAAAATATATATTTAAAAT
Found at i:4056530 original size:11 final size:11
Alignment explanation
Indices: 4056514--4056540 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
4056504 TATTTTTTAA
4056514 TTTTAAAATAC
1 TTTTAAAATAC
4056525 TTTTAAAATAC
1 TTTTAAAATAC
4056536 TTTTA
1 TTTTA
4056541 TTAAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:4056556 original size:40 final size:37
Alignment explanation
Indices: 4056505--4056650 Score: 187
Period size: 40 Copynumber: 4.0 Consensus size: 37
4056495 ATTATTTATT
4056505 ATTTTTTAATTTTAAAATACTTTTAAAATACTTTTATTAA
1 ATTTTTTAATTTTAAAATA-TTTTAAAATACTTTT-TT-A
* *
4056545 ATTTTTAAATTTTAAAATTTTTTTAAAATACTTTTTTA
1 ATTTTTTAATTTTAAAA-TATTTTAAAATACTTTTTTA
4056583 ATTTTTTAATTTTAAAATATTTTAAAATAC-TTTTTA
1 ATTTTTTAATTTTAAAATATTTTAAAATACTTTTTTA
*
4056619 A-TTTTT-ATTTT--AAT-TTTTAAAATAATTTTTTA
1 ATTTTTTAATTTTAAAATATTTTAAAATACTTTTTTA
4056651 GTATTTATTT
Statistics
Matches: 99, Mismatches: 5, Indels: 12
0.85 0.04 0.10
Matches are distributed among these distances:
31 10 0.10
32 9 0.09
34 5 0.05
35 5 0.05
36 7 0.07
37 12 0.12
38 17 0.17
39 2 0.02
40 31 0.31
41 1 0.01
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (37 bp):
ATTTTTTAATTTTAAAATATTTTAAAATACTTTTTTA
Found at i:4056901 original size:17 final size:18
Alignment explanation
Indices: 4056867--4056902 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4056857 TGAATTTTTA
4056867 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
4056885 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
4056902 T
1 T
4056903 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:4057517 original size:7 final size:7
Alignment explanation
Indices: 4057505--4057529 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4057495 TGTTTTACTT
4057505 AATAATA
1 AATAATA
4057512 AATAATA
1 AATAATA
4057519 AATAATA
1 AATAATA
4057526 AATA
1 AATA
4057530 TCTATTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AATAATA
Found at i:4058758 original size:63 final size:63
Alignment explanation
Indices: 4058635--4058758 Score: 140
Period size: 63 Copynumber: 2.0 Consensus size: 63
4058625 GTGTTAATGT
* * * * *
4058635 AGTGAATGATTGCGCGTGCTATGGTGCTTGTGTAAAATAAAGTAGTGCTAAATGATATGATAC
1 AGTGAACGATTGCGCGTGCTATGGTGCTTATGTAAAATAAAGTAGAGCTAAAGGAGATGATAC
* * * * * * *
4058698 AGTGAACGATTGGGCGTGCTGTGGTGGTTATGTAAAATAAATTGGAGCTGAAGGGGATGAT
1 AGTGAACGATTGCGCGTGCTATGGTGCTTATGTAAAATAAAGTAGAGCTAAAGGAGATGAT
4058759 GTAGGGAATG
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
63 49 1.00
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (63 bp):
AGTGAACGATTGCGCGTGCTATGGTGCTTATGTAAAATAAAGTAGAGCTAAAGGAGATGATAC
Found at i:4058988 original size:13 final size:13
Alignment explanation
Indices: 4058970--4059011 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
4058960 CCAGTGTGAG
4058970 AAATGATATTATC
1 AAATGATATTATC
* *
4058983 AAATGAATTTTACC
1 AAATG-ATATTATC
4058997 AAATGATATTATC
1 AAATGATATTATC
4059010 AA
1 AA
4059012 TCCATTTAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.36
Consensus pattern (13 bp):
AAATGATATTATC
Found at i:4061511 original size:69 final size:68
Alignment explanation
Indices: 4061358--4061514 Score: 192
Period size: 69 Copynumber: 2.3 Consensus size: 68
4061348 CCTGATCAGT
* * * * *
4061358 ATACGACACATAACTGCCT--AATACGACACACGAGGTGTCTGAAATACGACACACGAGGTGCTT
1 ATACGACACATAAGTGCCTGAAATACGACACACGAGGTGCCTGAAATACGACACACAAAGTGCCT
*
4061421 GAA
66 AAA
* * * *
4061424 ATATGACACACGAGGTGCCTGAAATACGACACACGAGGTGCCTGAAATACGACACATAAAGTGCC
1 ATACGACACA-TAAGTGCCTGAAATACGACACACGAGGTGCCTGAAATACGACACACAAAGTGCC
4061489 TAAA
65 TAAA
4061493 ATACGACACATAAAGTGCCTGA
1 ATACGACACAT-AAGTGCCTGA
4061515 TCGGCATAGC
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
66 9 0.12
67 6 0.08
69 59 0.80
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (68 bp):
ATACGACACATAAGTGCCTGAAATACGACACACGAGGTGCCTGAAATACGACACACAAAGTGCCT
AAA
Found at i:4061512 original size:23 final size:23
Alignment explanation
Indices: 4061377--4061502 Score: 189
Period size: 23 Copynumber: 5.5 Consensus size: 23
4061367 ATAACTGCCT
*
4061377 AATACGACACACGAGGTGTCTGA
1 AATACGACACACGAGGTGCCTGA
*
4061400 AATACGACACACGAGGTGCTTGA
1 AATACGACACACGAGGTGCCTGA
*
4061423 AATATGACACACGAGGTGCCTGA
1 AATACGACACACGAGGTGCCTGA
4061446 AATACGACACACGAGGTGCCTGA
1 AATACGACACACGAGGTGCCTGA
** * *
4061469 AATACGACACATAAAGTGCCTAA
1 AATACGACACACGAGGTGCCTGA
4061492 AATACGACACA
1 AATACGACACA
4061503 TAAAGTGCCT
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 94 1.00
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.16
Consensus pattern (23 bp):
AATACGACACACGAGGTGCCTGA
Found at i:4064004 original size:6 final size:6
Alignment explanation
Indices: 4063993--4064020 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
4063983 CAAAAAATAT
4063993 ATTAAA ATTAAA ATTAAA ATTAAA ATTA
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTA
4064021 TTTAAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
ATTAAA
Found at i:4065329 original size:4 final size:4
Alignment explanation
Indices: 4065320--4065344 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
4065310 AAGTGTTTTC
4065320 TTTG TTTG TTTG TTTG TTTG TTTG T
1 TTTG TTTG TTTG TTTG TTTG TTTG T
4065345 GATAATCTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TTTG
Found at i:4066269 original size:72 final size:72
Alignment explanation
Indices: 4066148--4066308 Score: 171
Period size: 72 Copynumber: 2.2 Consensus size: 72
4066138 AGGTGGGCGT
** * * * ** * *
4066148 TGAATTGCTACCAAAGCTTTTAGATGGTTCTACAATTGCCAACAGGATGGGTATGAATATGGAGG
1 TGAATTGCTACCAAAGCTTAGAGAAGATTCTACAAGTGCCAACAGGATGGACAAGAATATGGAGA
4066213 TGAACAC
66 TGAACAC
* * * *
4066220 TGAATTGCTACCATATCTTAGAGAAGATTCTACAAGTGCTAA-AGAGATGGACAAGACTATGGAG
1 TGAATTGCTACCAAAGCTTAGAGAAGATTCTACAAGTGCCAACAG-GATGGACAAGAATATGGAG
*
4066284 ATGAACAT
65 ATGAACAC
*
4066292 TGAATTGTTACCAAAGC
1 TGAATTGCTACCAAAGC
4066309 CTACAGTAGC
Statistics
Matches: 71, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
71 2 0.03
72 69 0.97
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (72 bp):
TGAATTGCTACCAAAGCTTAGAGAAGATTCTACAAGTGCCAACAGGATGGACAAGAATATGGAGA
TGAACAC
Found at i:4066325 original size:60 final size:60
Alignment explanation
Indices: 4066249--4066371 Score: 203
Period size: 60 Copynumber: 2.0 Consensus size: 60
4066239 AGAGAAGATT
* *
4066249 CTACAAGTGCTAAAGAGATGGACAAGACTATGGAGATGAACATTGAATTGTTACCAAAGC
1 CTACAAGTGCTAAAGAGATGGACAAGACTATGGAGATGAAAATTGAATTGTTACCAAAAC
*
4066309 CTAC-AGTAGCTAAAGAGATGGATAAGACTATGGAGATGAAAATTGAATTGTTACCAAAAC
1 CTACAAGT-GCTAAAGAGATGGACAAGACTATGGAGATGAAAATTGAATTGTTACCAAAAC
4066369 CTA
1 CTA
4066372 TAGAAGATTC
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 3 0.05
60 56 0.95
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (60 bp):
CTACAAGTGCTAAAGAGATGGACAAGACTATGGAGATGAAAATTGAATTGTTACCAAAAC
Found at i:4066413 original size:72 final size:75
Alignment explanation
Indices: 4066318--4066556 Score: 182
Period size: 75 Copynumber: 3.2 Consensus size: 75
4066308 CCTACAGTAG
* * *
4066318 CTAAAGAGATGGATAAGACTATGGA-GA-T-GAAAATTGAATTGTTACCAAAACCTATAGAAGAT
1 CTAAAGAGATGGATAAGAATATGGAGGAGTGGAAAATCGAATTGATACCAAAACCTATAGAAGAT
4066380 TCTACAAGTC
66 TCTACAAGTC
* * * ** * * * *
4066390 CTAAAGAGATGGGTCATAATATGGAGGAGTGGAGCATCGAATTGATATCAAAGCTTATGGAAGAT
1 CTAAAGAGATGGATAAGAATATGGAGGAGTGGAAAATCGAATTGATACCAAAACCTATAGAAGAT
* *
4066455 TCTCCAAGTG
66 TCTACAAGTC
* * * ** ** * * *
4066465 CTAAAGAGATAGATATGAAAATGGAGGAG-GAGAACGTTC-AATTGATGTCAAAGCTTACAGAAG
1 CTAAAGAGATGGATAAGAATATGGAGGAGTG-GAA-AATCGAATTGATACCAAAACCTATAGAAG
* * *
4066528 ATTCTTCAAATG
64 ATTCTACAAGTC
4066540 CTAAAGAGATGGATAAG
1 CTAAAGAGATGGATAAG
4066557 GATGTGGCAG
Statistics
Matches: 132, Mismatches: 30, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
72 21 0.16
73 2 0.02
74 2 0.02
75 105 0.80
76 2 0.02
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.24
Consensus pattern (75 bp):
CTAAAGAGATGGATAAGAATATGGAGGAGTGGAAAATCGAATTGATACCAAAACCTATAGAAGAT
TCTACAAGTC
Found at i:4066463 original size:75 final size:75
Alignment explanation
Indices: 4066373--4066554 Score: 208
Period size: 75 Copynumber: 2.4 Consensus size: 75
4066363 CAAAACCTAT
* * * *
4066373 AGAAGATTCTACAAGTCCTAAAGAGATGGGTCAT-AATATGGAGGAGTG-GAGC-ATCGAATTGA
1 AGAAGATTCTACAAGTGCTAAAGAGATGGAT-ATGAAAATGGAGGAG-GAGAACGATC-AATTGA
*
4066435 TATCAAAGCTTAT
63 TATCAAAGCTTAC
* * * * *
4066448 GGAAGATTCTCCAAGTGCTAAAGAGATAGATATGAAAATGGAGGAGGAGAACGTTCAATTGATGT
1 AGAAGATTCTACAAGTGCTAAAGAGATGGATATGAAAATGGAGGAGGAGAACGATCAATTGATAT
4066513 CAAAGCTTAC
66 CAAAGCTTAC
* *
4066523 AGAAGATTCTTCAAATGCTAAAGAGATGGATA
1 AGAAGATTCTACAAGTGCTAAAGAGATGGATA
4066555 AGGATGTGGC
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
74 3 0.03
75 85 0.94
76 2 0.02
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (75 bp):
AGAAGATTCTACAAGTGCTAAAGAGATGGATATGAAAATGGAGGAGGAGAACGATCAATTGATAT
CAAAGCTTAC
Found at i:4073036 original size:7 final size:7
Alignment explanation
Indices: 4073024--4073078 Score: 58
Period size: 7 Copynumber: 7.7 Consensus size: 7
4073014 TAGGGTTAGA
4073024 GTTTTGG
1 GTTTTGG
4073031 GTTTTGG
1 GTTTTGG
4073038 GTTTTGG
1 GTTTTGG
*
4073045 G-TTAGG
1 GTTTTGG
4073051 GTTTTGGG
1 GTTTT-GG
*
4073059 GTTTTTGA
1 G-TTTTGG
*
4073067 GTTTAGG
1 GTTTTGG
4073074 GTTTT
1 GTTTT
4073079 AAAGAAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
6 5 0.13
7 25 0.64
8 5 0.13
9 4 0.10
ACGTcount: A:0.05, C:0.00, G:0.40, T:0.55
Consensus pattern (7 bp):
GTTTTGG
Found at i:4073052 original size:13 final size:13
Alignment explanation
Indices: 4073016--4073058 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
4073006 CTTTGCGTTA
*
4073016 GGGTTAGAGTTTT
1 GGGTTAGGGTTTT
*
4073029 GGGTTTTGGGTTTT
1 GGG-TTAGGGTTTT
4073043 GGGTTAGGGTTTT
1 GGGTTAGGGTTTT
4073056 GGG
1 GGG
4073059 GTTTTTGAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.07, C:0.00, G:0.47, T:0.47
Consensus pattern (13 bp):
GGGTTAGGGTTTT
Found at i:4073242 original size:96 final size:94
Alignment explanation
Indices: 4073104--4073374 Score: 344
Period size: 96 Copynumber: 2.8 Consensus size: 94
4073094 TAAATAAGGG
* * * * * *
4073104 ATTAGGATTTAGGGTTTCTTAATTAAATTAATTATAAATTTTTTAAAATTAGATTAGGGTTTCGT
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTTTAAAATTAGATTAGGGTTTAGT
* *
4073169 GTTTATGGTTTTTAAGGAAAAAATCAATTAA
66 GTTTAGGGTTTTTAAGG-AAAAATCAAAT-A
* * *
4073200 ATTAGGGTTTAAGGTTACTTGAGTAAATTAATTATAATTTTTTTTAAAAATCATATTAGGGTTTA
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAA-TTTTTTT-AAAATTAGATTAGGGTTTA
*
4073265 GTGTTAAGGGTTTTTAAGGAAAAATCAAATA
64 GTGTTTAGGGTTTTTAAGGAAAAATCAAATA
* ****
4073296 ATTAAGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTAAAAAAAATTAGATTAGGGTTTAG
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT-AATTTTTTTAAAATTAGATTAGGGTTTAG
4073361 TGTTTAGGGTTTTT
65 TGTTTAGGGTTTTT
4073375 GAGTAAATTA
Statistics
Matches: 151, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
95 31 0.21
96 69 0.46
97 18 0.12
98 33 0.22
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.43
Consensus pattern (94 bp):
ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTTTAAAATTAGATTAGGGTTTAGT
GTTTAGGGTTTTTAAGGAAAAATCAAATA
Found at i:4073849 original size:18 final size:18
Alignment explanation
Indices: 4073823--4073865 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
4073813 GACAAGAAGA
* * *
4073823 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
4073841 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
4073859 AGGATAC
1 AGGATAC
4073866 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:4073954 original size:30 final size:30
Alignment explanation
Indices: 4073920--4073977 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
4073910 TTGAAGTGTT
*
4073920 GGGTCGGGTGACTGTGTCGGTGCTGTTGTC
1 GGGTCGGGTGACTGTGTCGGCGCTGTTGTC
* * *
4073950 GGGTCTGGTGATTGTGTGGGCGCTGTTG
1 GGGTCGGGTGACTGTGTCGGCGCTGTTG
4073978 ATGCGCCTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.03, C:0.14, G:0.48, T:0.34
Consensus pattern (30 bp):
GGGTCGGGTGACTGTGTCGGCGCTGTTGTC
Found at i:4074493 original size:7 final size:7
Alignment explanation
Indices: 4074483--4074508 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4074473 TTATATACAT
4074483 AATACTA
1 AATACTA
4074490 AATACTA
1 AATACTA
4074497 AATACTA
1 AATACTA
4074504 AATAC
1 AATAC
4074509 GAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:4075680 original size:11 final size:11
Alignment explanation
Indices: 4075666--4075712 Score: 62
Period size: 11 Copynumber: 4.3 Consensus size: 11
4075656 GAGAGCTTTA
4075666 AGAGGAATTTG
1 AGAGGAATTTG
4075677 AGAGGAATTTG
1 AGAGGAATTTG
4075688 AGA-GAATATT-
1 AGAGGAAT-TTG
4075698 AGAGAGAATTTG
1 AGAG-GAATTTG
4075710 AGA
1 AGA
4075713 AAAAGGATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.22
11 18 0.56
12 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.26
Consensus pattern (11 bp):
AGAGGAATTTG
Found at i:4081072 original size:13 final size:13
Alignment explanation
Indices: 4081056--4081083 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4081046 AAAAGTATTT
4081056 TAAAAATAAAAAA
1 TAAAAATAAAAAA
4081069 TAAAAATAAAAAA
1 TAAAAATAAAAAA
4081082 TA
1 TA
4081084 TATATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:4081915 original size:20 final size:20
Alignment explanation
Indices: 4081890--4081927 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4081880 TATCTTAAGT
*
4081890 TAATTAAATTATGTTAATGA
1 TAATTAAATTAAGTTAATGA
*
4081910 TAATTAAGTTAAGTTAAT
1 TAATTAAATTAAGTTAAT
4081928 TAGGTCTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (20 bp):
TAATTAAATTAAGTTAATGA
Found at i:4085389 original size:18 final size:17
Alignment explanation
Indices: 4085366--4085402 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
4085356 TAAGTCTAAG
*
4085366 AAAATAATAATAAACATA
1 AAAATAAAAATAAA-ATA
4085384 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAATA
4085401 AA
1 AA
4085403 TAAACTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:4092491 original size:42 final size:42
Alignment explanation
Indices: 4092368--4092510 Score: 132
Period size: 42 Copynumber: 3.4 Consensus size: 42
4092358 CTTATCACTA
* * * * *
4092368 ATGATGCACTTGCA-TGCCAATATAATTACTTCGATTTATTAG
1 ATGATGCACTT-AAGTGTCAATATGATTACTTTGATTTATTCG
* * *
4092410 ATGATGCACTTAAAGTATCAATAGGACTA-TTTCCG-TTTATTCG
1 ATGATGCACTT-AAGTGTCAATATGATTACTTT--GATTTATTCG
*
4092453 ATGATGCACTTATGTGTCAATATGATTACTTTGATTTATTCG
1 ATGATGCACTTAAGTGTCAATATGATTACTTTGATTTATTCG
*
4092495 ATGATGCA-TTACGTGT
1 ATGATGCACTTAAGTGT
4092511 GACAGTATAA
Statistics
Matches: 82, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
41 8 0.10
42 43 0.52
43 30 0.37
44 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.40
Consensus pattern (42 bp):
ATGATGCACTTAAGTGTCAATATGATTACTTTGATTTATTCG
Found at i:4095809 original size:12 final size:12
Alignment explanation
Indices: 4095794--4095820 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4095784 ATGTTTTAAA
4095794 AAATAAAAATTT
1 AAATAAAAATTT
4095806 AAATAAAAATTT
1 AAATAAAAATTT
4095818 AAA
1 AAA
4095821 GAATTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATAAAAATTT
Found at i:4096475 original size:22 final size:21
Alignment explanation
Indices: 4096449--4096497 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
4096439 AAATATGTAA
4096449 ATAAAACA-AAATTATAAGAACT
1 ATAAAACATAAA-TATAA-AACT
*
4096471 ATAAAATATAAATATAAAACT
1 ATAAAACATAAATATAAAACT
*
4096492 AAAAAA
1 ATAAAA
4096498 TTTATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 9 0.38
22 12 0.50
23 3 0.12
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.22
Consensus pattern (21 bp):
ATAAAACATAAATATAAAACT
Found at i:4100342 original size:25 final size:26
Alignment explanation
Indices: 4100293--4100344 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
4100283 TCTTTTCTTT
* *
4100293 TCTTTTCATTTTTAGATTAGGTTTTA
1 TCTTTTCATTTTTAGAATAGATTTTA
4100319 TCTTTTC-TTTTTAGAATAGATTTTA
1 TCTTTTCATTTTTAGAATAGATTTTA
4100344 T
1 T
4100345 ATTTATTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.21, C:0.08, G:0.10, T:0.62
Consensus pattern (26 bp):
TCTTTTCATTTTTAGAATAGATTTTA
Found at i:4103072 original size:50 final size:50
Alignment explanation
Indices: 4102968--4103261 Score: 345
Period size: 50 Copynumber: 5.7 Consensus size: 50
4102958 TAAAGAGATT
4102968 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATC---GAG---ATGAGAGGTC
*
4103024 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGGTC
* *
4103074 TCATATAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGGTC
** * * * * **
4103124 CCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGCGAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAG-AGGTC
* * * **
4103175 CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAG-AGGTC
* * *
4103226 CCATGTAAGACGATGTCTAGGACATGGCTTTGGCAT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
4103262 GTTATTATCA
Statistics
Matches: 215, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
50 94 0.44
51 82 0.38
53 3 0.01
56 36 0.17
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGGTC
Found at i:4112465 original size:4 final size:4
Alignment explanation
Indices: 4112456--4112527 Score: 96
Period size: 4 Copynumber: 18.0 Consensus size: 4
4112446 TGTCTTTCTC
4112456 CTTT CTTT CTTT CTTT CTTT -TTT -TTT CTTT CTTT C-TT CTTT CTGTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT C--TTT
4112503 CGTTT CTTT CTTT CTTT CTTT CTTT
1 C-TTT CTTT CTTT CTTT CTTT CTTT
4112528 TTATTACTTA
Statistics
Matches: 64, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
3 9 0.14
4 46 0.72
5 5 0.08
6 4 0.06
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.75
Consensus pattern (4 bp):
CTTT
Found at i:4112485 original size:22 final size:22
Alignment explanation
Indices: 4112448--4112521 Score: 96
Period size: 22 Copynumber: 3.3 Consensus size: 22
4112438 CCTAACCTTG
*
4112448 TCTTTCTCCTTTCTTTCTTTCTT
1 TCTTTCT-GTTTCTTTCTTTCTT
* *
4112471 TCTTTTTTTTTCTTTCTTTC-T
1 TCTTTCTGTTTCTTTCTTTCTT
4112492 TCTTTCTGTTTCGTTTCTTTCTT
1 TCTTTCTGTTTC-TTTCTTTCTT
4112515 TCTTTCT
1 TCTTTCT
4112522 TTCTTTTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.24
22 20 0.44
23 14 0.31
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.73
Consensus pattern (22 bp):
TCTTTCTGTTTCTTTCTTTCTT
Found at i:4113610 original size:30 final size:29
Alignment explanation
Indices: 4113518--4113613 Score: 77
Period size: 30 Copynumber: 3.2 Consensus size: 29
4113508 TATAAATTGA
* **
4113518 TACTTAAACTATGTCATTCTTCTCATCTTGG
1 TACTTAAACTAT-TTATT-TTCTCAAGTTGG
* * * *
4113549 TACCTAAACTTTTTTTTTTATCACAAG-TGG
1 TACTTAAAC-TATTTATTT-TCTCAAGTTGG
4113579 TACTTAAACTACTTTATTTTCTCAAGTTGG
1 TACTTAAACTA-TTTATTTTCTCAAGTTGG
4113609 TACTT
1 TACTT
4113614 TCATTAGTTA
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
29 7 0.14
30 26 0.52
31 15 0.30
32 2 0.04
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (29 bp):
TACTTAAACTATTTATTTTCTCAAGTTGG
Found at i:4114186 original size:16 final size:16
Alignment explanation
Indices: 4114164--4114283 Score: 69
Period size: 19 Copynumber: 6.8 Consensus size: 16
4114154 AAGTTATCAA
4114164 AAAATATAAAAATTAT
1 AAAATATAAAAATTAT
* *
4114180 TAAATATAAAAAGTAT
1 AAAATATAAAAATTAT
*
4114196 AAAATTATGAAAATTGAT
1 AAAA-TATAAAAATT-AT
*
4114214 ATAAACTTATAAATATTAT
1 A-AAA--TATAAAAATTAT
* *
4114233 AAAAAATTGTAAATATTAT
1 --AAAA-TATAAAAATTAT
4114252 AAATATATAAAAAATCTAAT
1 AAA-ATAT-AAAAAT-T-AT
*
4114272 AAATTATAAAAA
1 AAAATATAAAAA
4114284 AAATATAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
16 17 0.20
17 13 0.16
18 14 0.17
19 21 0.25
20 17 0.20
21 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (16 bp):
AAAATATAAAAATTAT
Found at i:4114323 original size:21 final size:21
Alignment explanation
Indices: 4114275--4114350 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
4114265 ATCTAATAAA
* *
4114275 TTATAAAAAAAATATAAAA-T
1 TTATAAAAAATATTTAAAATT
* *
4114295 TAATAAAACATATTTAAAATT
1 TTATAAAAAATATTTAAAATT
4114316 TTATAAAAAAGTA-TTAAAATT
1 TTATAAAAAA-TATTTAAAATT
*
4114337 CTATTAAAACAATA
1 TTA-TAAAA-AATA
4114351 AAAACCATAA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
20 15 0.33
21 19 0.42
22 9 0.20
23 2 0.04
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (21 bp):
TTATAAAAAATATTTAAAATT
Found at i:4114406 original size:9 final size:9
Alignment explanation
Indices: 4114151--4114409 Score: 96
Period size: 9 Copynumber: 27.6 Consensus size: 9
4114141 TAAAAAACAG
4114151 AAAAAGTTAT
1 AAAAA-TTAT
*
4114161 CAAAAAATAT
1 -AAAAATTAT
4114171 AAAAATTAT
1 AAAAATTAT
*
4114180 -TAAA-TAT
1 AAAAATTAT
*
4114187 AAAAAGTAT
1 AAAAATTAT
4114196 -AAAATTAT
1 AAAAATTAT
*
4114204 GAAAATTGAT
1 AAAAATT-AT
*
4114214 ATAAACTTAT
1 A-AAAATTAT
*
4114224 AAATATTAT
1 AAAAATTAT
*
4114233 AAAAAATTGT
1 -AAAAATTAT
*
4114243 AAATATTAT
1 AAAAATTAT
*
4114252 AAATA-TAT
1 AAAAATTAT
* *
4114260 AAAAAATCT
1 AAAAATTAT
4114269 AATAAATTAT
1 AA-AAATTAT
**
4114279 AAAAAAAAT
1 AAAAATTAT
4114288 ATAAAATTAAT
1 A-AAAATT-AT
*
4114299 AAAACATATTT
1 AAAA-AT-TAT
*
4114310 AAAATTTTAT
1 AAAA-ATTAT
*
4114320 AAAAAAGTATT
1 -AAAAATTA-T
*
4114331 AAAATTCTAT
1 AAAAAT-TAT
* **
4114341 TAAAACAAT
1 AAAAATTAT
**
4114350 AAAAACCAT
1 AAAAATTAT
*
4114359 AAAAAGTAT
1 AAAAATTAT
*
4114368 TAAAA-TATT
1 AAAAATTA-T
*
4114377 AAAAATGAT
1 AAAAATTAT
* *
4114386 ATGAAGTTAT
1 A-AAAATTAT
4114396 AAAAATTAT
1 AAAAATTAT
4114405 AAAAA
1 AAAAA
4114410 AGATTCATAA
Statistics
Matches: 185, Mismatches: 45, Indels: 38
0.69 0.17 0.14
Matches are distributed among these distances:
7 3 0.02
8 22 0.12
9 83 0.45
10 48 0.26
11 28 0.15
12 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:4118104 original size:9 final size:8
Alignment explanation
Indices: 4118073--4118139 Score: 55
Period size: 8 Copynumber: 7.9 Consensus size: 8
4118063 GTATATATCA
4118073 ATTTTAAT
1 ATTTTAAT
4118081 ATTTTAAT
1 ATTTTAAT
*
4118089 ATTTTTAT
1 ATTTTAAT
4118097 AATATTTAAT
1 -AT-TTTAAT
*
4118107 -TTTTAAGA
1 ATTTTAA-T
4118115 ATTTTAAT
1 ATTTTAAT
*
4118123 ATGTTTTTAT
1 A--TTTTAAT
4118133 ATTTTAA
1 ATTTTAA
4118140 ATATGTTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
7 5 0.11
8 22 0.47
9 8 0.17
10 12 0.26
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (8 bp):
ATTTTAAT
Found at i:4118106 original size:18 final size:18
Alignment explanation
Indices: 4118077--4118243 Score: 82
Period size: 18 Copynumber: 9.1 Consensus size: 18
4118067 ATATCAATTT
4118077 TAATATTTTAATATTTTTA
1 TAATA-TTTAATATTTTTA
*
4118096 TAATATTTAAT-TTTTAA
1 TAATATTTAATATTTTTA
*
4118113 GAAT-TTTAATATGTTTT-
1 TAATATTTAATAT-TTTTA
4118130 T-ATATTTTAAATATGTTTTA
1 TAATA-TTT-AATAT-TTTTA
* * *
4118150 TTA-ATTTCATAATTTTTT
1 TAATATTTAAT-ATTTTTA
4118168 TAAT-TTTAATATGTTTAGTA
1 TAATATTTAATAT-TTT--TA
4118188 TCAAT-TTTAATATTTTTA
1 T-AATATTTAATATTTTTA
* * *
4118206 T-TTTTTATAACA-TTTTA
1 TAATATT-TAATATTTTTA
*
4118223 TAATTTTTAATCATTTTTA
1 TAATATTTAAT-ATTTTTA
4118242 TA
1 TA
4118244 GAGAAAATAT
Statistics
Matches: 117, Mismatches: 13, Indels: 36
0.70 0.08 0.22
Matches are distributed among these distances:
16 9 0.08
17 22 0.19
18 40 0.34
19 27 0.23
20 7 0.06
21 12 0.10
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (18 bp):
TAATATTTAATATTTTTA
Found at i:4118120 original size:16 final size:17
Alignment explanation
Indices: 4118081--4118124 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
4118071 CAATTTTAAT
* *
4118081 ATTTTAATATTTTTATA
1 ATTTTAATATTTTAAGA
4118098 ATATTTAAT-TTTTAAGA
1 AT-TTTAATATTTTAAGA
4118115 ATTTTAATAT
1 ATTTTAATAT
4118125 GTTTTTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 6 0.26
17 11 0.48
18 6 0.26
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
ATTTTAATATTTTAAGA
Found at i:4118178 original size:55 final size:52
Alignment explanation
Indices: 4118074--4118206 Score: 137
Period size: 55 Copynumber: 2.4 Consensus size: 52
4118064 TATATATCAA
4118074 TTTTAATATTTTAATATTTTTATAATATTTAATTTTTAAGAATTTTAATATG
1 TTTTAATATTTTAATATTTTTATAATATTTAATTTTTAAGAATTTTAATATG
* **
4118126 TTTTTATATTTTAAATATGTTTTATTAAT-TTCATAATTTTT-TTAATTTTAATATG
1 TTTTAATATTTT-AATAT-TTTTA-TAATATT--TAATTTTTAAGAATTTTAATATG
4118181 -TTTAGTATCAATTTTAATATTTTTAT
1 TTTTA--AT--ATTTTAATATTTTTAT
4118207 TTTTTATAAC
Statistics
Matches: 68, Mismatches: 4, Indels: 15
0.78 0.05 0.17
Matches are distributed among these distances:
52 11 0.16
53 5 0.07
54 10 0.15
55 17 0.25
56 15 0.22
57 5 0.07
58 5 0.07
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (52 bp):
TTTTAATATTTTAATATTTTTATAATATTTAATTTTTAAGAATTTTAATATG
Found at i:4118204 original size:36 final size:35
Alignment explanation
Indices: 4118114--4118210 Score: 97
Period size: 36 Copynumber: 2.6 Consensus size: 35
4118104 AATTTTTAAG
*
4118114 AATTTTAATATGTTTTTATATTTTAAATATGTTTTATT
1 AATTTTAATA--TTTTTA-ATTTTAAATATGTTTTATC
*
4118152 AATTTCATAATTTTTTTAATTTT-AATATGTTTAGTATC
1 AATTT--TAATATTTTTAATTTTAAATATGTTT--TATC
*
4118190 AATTTTAATATTTTTATTTTT
1 AATTTTAATATTTTTAATTTT
4118211 TATAACATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
36 23 0.45
37 5 0.10
38 19 0.37
40 4 0.08
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (35 bp):
AATTTTAATATTTTTAATTTTAAATATGTTTTATC
Found at i:4118227 original size:55 final size:54
Alignment explanation
Indices: 4118114--4118229 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 54
4118104 AATTTTTAAG
* * *
4118114 AATTTTAATATGTTTTTATATTTTAAATATGTTTTATTAATTTCATAATTTTTTT
1 AATTTTAATATGTTTGTATATTTTAAATATGTTTTATT-ATTTCATAAATTTTAT
*
4118169 AATTTTAATATGTTTAGTATCAATTTT-AATAT-TTTTATT-TTTTATAACATTTTAT
1 AATTTTAATATGTTT-GTAT--ATTTTAAATATGTTTTATTATTTCATAA-ATTTTAT
4118224 AATTTT
1 AATTTT
4118230 TAATCATTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
54 7 0.13
55 26 0.49
56 10 0.19
57 5 0.09
58 5 0.09
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (54 bp):
AATTTTAATATGTTTGTATATTTTAAATATGTTTTATTATTTCATAAATTTTAT
Found at i:4118543 original size:14 final size:14
Alignment explanation
Indices: 4118526--4118571 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
4118516 CCTCTCCTCT
4118526 CTCTTCGGCGTCAC
1 CTCTTCGGCGTCAC
* * *
4118540 CTCTTC-TCCTC-T
1 CTCTTCGGCGTCAC
4118552 CTCTTCGGCGTCAC
1 CTCTTCGGCGTCAC
4118566 CTCTTC
1 CTCTTC
4118572 TCCTCTCTCC
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
12 6 0.25
13 6 0.25
14 12 0.50
ACGTcount: A:0.04, C:0.46, G:0.13, T:0.37
Consensus pattern (14 bp):
CTCTTCGGCGTCAC
Found at i:4118548 original size:26 final size:26
Alignment explanation
Indices: 4118518--4118580 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
4118508 TCTCCTCTCC
4118518 TCTCCTCTCTCTTCGGCGTCACCTCT
1 TCTCCTCTCTCTTCGGCGTCACCTCT
4118544 TCTCCTCTCTCTTCGGCGTCACCTCT
1 TCTCCTCTCTCTTCGGCGTCACCTCT
4118570 TCTCCTCTCTC
1 TCTCCTCTCTC
4118581 CGGCAGTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.03, C:0.48, G:0.10, T:0.40
Consensus pattern (26 bp):
TCTCCTCTCTCTTCGGCGTCACCTCT
Found at i:4124554 original size:4 final size:4
Alignment explanation
Indices: 4124434--4124535 Score: 113
Period size: 4 Copynumber: 26.0 Consensus size: 4
4124424 CCACACACGC
* * *
4124434 ACAT ACAT AC-- ACAC ACAT ACAT ATGCAT AC-- ACAC ACAC ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT A--CAT ACAT ACAT ACAT ACAT ACAT
* *
4124480 ACAT ACAT GCAT ACAT ACAT ACAT ACAT ACAT GCAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4124528 ACAT ACAT
1 ACAT ACAT
4124536 GAAATATATC
Statistics
Matches: 86, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
2 4 0.05
4 78 0.91
6 4 0.05
ACGTcount: A:0.47, C:0.28, G:0.03, T:0.22
Consensus pattern (4 bp):
ACAT
Found at i:4126990 original size:12 final size:12
Alignment explanation
Indices: 4126973--4127000 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
4126963 TTCATACCAG
4126973 TCAAGTTAAGAC
1 TCAAGTTAAGAC
4126985 TCAAGTTAAGAC
1 TCAAGTTAAGAC
4126997 TCAA
1 TCAA
4127001 TCGGTATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (12 bp):
TCAAGTTAAGAC
Found at i:4131894 original size:6 final size:6
Alignment explanation
Indices: 4131883--4131914 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
4131873 CGTACCTCAT
*
4131883 TTCCTC TTCCTC TTCCTC TTCCTC GTCCTC TT
1 TTCCTC TTCCTC TTCCTC TTCCTC TTCCTC TT
4131915 TCACGGCCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (6 bp):
TTCCTC
Found at i:4132478 original size:24 final size:24
Alignment explanation
Indices: 4132450--4132508 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
4132440 GTTGTGGTGT
* *
4132450 TTGTGCTAATAATGGTGGCGCTGC
1 TTGTGCTAACAATGATGGCGCTGC
* * *
4132474 TTGTGCTGACAATGATTGCGGTGC
1 TTGTGCTAACAATGATGGCGCTGC
4132498 TTGTGCTAACA
1 TTGTGCTAACA
4132509 CAGGTTGTGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.34
Consensus pattern (24 bp):
TTGTGCTAACAATGATGGCGCTGC
Found at i:4138846 original size:3 final size:3
Alignment explanation
Indices: 4138838--4138888 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
4138828 ATCTTGTATC
* * *
4138838 ATT ATT ATT ATT ATTT ATT ATT GTT ATT GTT ATT ATT ATT TTT ATT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
4138884 TTT AT
1 ATT AT
4138889 ATTCATGCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (3 bp):
ATT
Found at i:4139389 original size:15 final size:16
Alignment explanation
Indices: 4139369--4139398 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4139359 GATTTATGTT
4139369 TTCATTT-ATATTTTG
1 TTCATTTGATATTTTG
4139384 TTCATTTGATATTTT
1 TTCATTTGATATTTT
4139399 ACATGTCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (16 bp):
TTCATTTGATATTTTG
Found at i:4141167 original size:20 final size:20
Alignment explanation
Indices: 4141144--4141182 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4141134 AAGGACTGGG
*
4141144 TTCAAGGTTTGAGATTCAAT
1 TTCAAGGTTTAAGATTCAAT
4141164 TTCAAGGTTTAAGATTCAA
1 TTCAAGGTTTAAGATTCAA
4141183 GGTAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (20 bp):
TTCAAGGTTTAAGATTCAAT
Found at i:4143824 original size:2 final size:2
Alignment explanation
Indices: 4143817--4143843 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4143807 AAATGTGAAA
4143817 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
4143844 AGGAAGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4144379 original size:27 final size:26
Alignment explanation
Indices: 4144347--4144407 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 26
4144337 TTTTTGGTCA
*
4144347 TTAAGGACTCAGTAAGGTGTACTTTTT
1 TTAAGGACTCAATAAGGTGTAC-TTTT
*
4144374 TTAAGGGCTCAATAAGGTGTACTTTT
1 TTAAGGACTCAATAAGGTGTACTTTT
4144400 TTAAGGAC
1 TTAAGGAC
4144408 CTAGTTGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
26 11 0.35
27 20 0.65
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (26 bp):
TTAAGGACTCAATAAGGTGTACTTTT
Found at i:4147279 original size:45 final size:45
Alignment explanation
Indices: 4147215--4147304 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
4147205 TCACCTAGAC
* *
4147215 TTCATTTGTCATTATCAATCTAATTTATTTACTTAGTAAATTGAT
1 TTCATCTGTCACTATCAATCTAATTTATTTACTTAGTAAATTGAT
* *
4147260 TTCATCTGTCACTATCAATCTAATTTCTTTACTTAGTAACTTGAT
1 TTCATCTGTCACTATCAATCTAATTTATTTACTTAGTAAATTGAT
4147305 CTGTAGAAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.29, C:0.16, G:0.07, T:0.49
Consensus pattern (45 bp):
TTCATCTGTCACTATCAATCTAATTTATTTACTTAGTAAATTGAT
Found at i:4147502 original size:38 final size:38
Alignment explanation
Indices: 4147460--4147537 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
4147450 TAATCTAGTA
*
4147460 GATTTATGGTAGATTTGACTCTAAGGGCAAGACTTCAG
1 GATTTATGGTAGATTTGACTCTAAGAGCAAGACTTCAG
4147498 GATTTATGGTAGATTTGACTCTAAGAGCAAGACTTCAG
1 GATTTATGGTAGATTTGACTCTAAGAGCAAGACTTCAG
4147536 GA
1 GA
4147538 ATAGTTCATG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.31
Consensus pattern (38 bp):
GATTTATGGTAGATTTGACTCTAAGAGCAAGACTTCAG
Found at i:4151273 original size:40 final size:38
Alignment explanation
Indices: 4151204--4151321 Score: 148
Period size: 40 Copynumber: 3.0 Consensus size: 38
4151194 GGCGTTTAGA
* *
4151204 TAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTT
1 TAAAAAACGCCACTAAAAAT-GAGCATTAGCGGCGCTTT
* * *
4151243 TAATAAAATGCCACTAAAGATAGAGTATTAGCGGCGCTTTT
1 TAA-AAAACGCCACTAAAAAT-GAGCATTAGCGGCGC-TTT
4151284 TAAAAAACGCCACTAAAAATGAGCATTAGCGGCG-TTT
1 TAAAAAACGCCACTAAAAATGAGCATTAGCGGCGCTTT
4151321 T
1 T
4151322 CCATAAAGCG
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
37 4 0.06
39 16 0.24
40 42 0.62
41 6 0.09
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (38 bp):
TAAAAAACGCCACTAAAAATGAGCATTAGCGGCGCTTT
Found at i:4151439 original size:41 final size:42
Alignment explanation
Indices: 4151377--4151498 Score: 169
Period size: 41 Copynumber: 3.0 Consensus size: 42
4151367 GAGTTTTTGG
*
4151377 GGGCATTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCT-AA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAA
*
4151418 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAA
** * *
4151460 --TTTTTAGCGGCGTTTATGAGGAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
4151499 GATTTATCAT
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
40 34 0.47
41 38 0.52
42 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (42 bp):
GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAA
Found at i:4151484 original size:40 final size:41
Alignment explanation
Indices: 4151382--4151498 Score: 166
Period size: 40 Copynumber: 2.9 Consensus size: 41
4151372 TTTGGGGGCA
4151382 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCT-AAGGGCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAA-GGCT
* **
4151423 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTA-TTT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAAGGCT
* *
4151463 TTAGCGGCGTTTATGAGGAAGCGCCGCTAATGCTCA
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
4151499 GATTTATCAT
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
40 34 0.49
41 34 0.49
42 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAAGGCT
Found at i:4153523 original size:17 final size:17
Alignment explanation
Indices: 4153498--4153537 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
4153488 TCACTGGACT
*
4153498 GAAACCCTAGATGAGAA
1 GAAATCCTAGATGAGAA
4153515 GAAATCCTAGATGAGAA
1 GAAATCCTAGATGAGAA
4153532 GAAATC
1 GAAATC
4153538 GGAGGAAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.15
Consensus pattern (17 bp):
GAAATCCTAGATGAGAA
Found at i:4155150 original size:23 final size:23
Alignment explanation
Indices: 4155120--4156681 Score: 1039
Period size: 23 Copynumber: 68.3 Consensus size: 23
4155110 TTAATCGATA
*
4155120 TGTTTAAGTGCTGCAAATTTAAG
1 TGTTTAAGTGCTGCAAATTGAAG
*
4155143 TGTTTAAGTGCTGCAAATTTAAG
1 TGTTTAAGTGCTGCAAATTGAAG
* * *
4155166 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
*
4155189 TGTTTAAGTGCTGCAAATTGCAG
1 TGTTTAAGTGCTGCAAATTGAAG
4155212 TGTTTAAGTGCTGCAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
* *
4155235 TGCTT-AGTTGCTGGAAATTG-AG
1 TGTTTAAG-TGCTGCAAATTGAAG
* * * *
4155257 ATGTTTTA-TCGCCG-TAATTGAGG
1 -TGTTTAAGT-GCTGCAAATTGAAG
*
4155280 TGTTTAAGTGCTGCAAATTTAAG
1 TGTTTAAGTGCTGCAAATTGAAG
* * * *
4155303 TGTTTAAATGTTGTAAATTGACG
1 TGTTTAAGTGCTGCAAATTGAAG
*
4155326 TGTTAAAGTGCTGCAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
4155349 TGTTTAAGTGCTGCAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
*
4155372 TGCTT-AGTTGCTGCAAATTG-AG
1 TGTTTAAG-TGCTGCAAATTGAAG
* * *
4155394 ATGTTTTA-TCGCTG-TAATTGAGG
1 -TGTTTAAGT-GCTGCAAATTGAAG
* * * **
4155417 TGTATAAATGTTGTTAATTGATA-
1 TGTTTAAGTGCTGCAAATTGA-AG
*
4155440 TGTTTAAGTGCTGCAAATTTAAG
1 TGTTTAAGTGCTGCAAATTGAAG
* * * *
4155463 TGTTTAAATGTTGTAAATTGACG
1 TGTTTAAGTGCTGCAAATTGAAG
*
4155486 TGTTAAAGTGCTGCAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
4155509 TGTTTAAGTGCTGCAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
* *
4155532 TGCTT-AGTTGCTGGAAATTG-AG
1 TGTTTAAG-TGCTGCAAATTGAAG
* * *
4155554 ATGTTTTA-TCGCTG-TAATTGAGG
1 -TGTTTAAGT-GCTGCAAATTGAAG
* * * **
4155577 TGTATAAATGTTGTTAATTGATA-
1 TGTTTAAGTGCTGCAAATTGA-AG
*
4155600 TGTTTAAGTGCTGCAAATTTAAG
1 TGTTTAAGTGCTGCAAATTGAAG
* * *
4155623 TGTTTAAATGCTGTAAATTGACG
1 TGTTTAAGTGCTGCAAATTGAAG
4155646 TGTTTAAGTGCTGCAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
4155669 TGTTTTAAGTGCTGCAAATTGAAG
1 TG-TTTAAGTGCTGCAAATTGAAG
*
4155693 TGTTT-AGTTGCTGGAAATTG-AG
1 TGTTTAAG-TGCTGCAAATTGAAG
* * * *
4155715 ATGTTTTA-TCGCCG-TAATTGAGG
1 -TGTTTAAGT-GCTGCAAATTGAAG
* * * ** *
4155738 TGTATAAATGTTGTTAACTGATA-
1 TGTTTAAGTGCTGCAAATTGA-AG
* *
4155761 TGTTTAAGTGTTGCAAATTTAAG
1 TGTTTAAGTGCTGCAAATTGAAG
* *
4155784 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
4155807 TGTTTAAGTGCTGCAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
4155830 TGTTTAAGTGCTGCAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
* *
4155853 TGCTT-AGTTGCTGGAAATTG-AG
1 TGTTTAAG-TGCTGCAAATTGAAG
* * *
4155875 ATGTTTTA-TCGCTG-TAATTGAGG
1 -TGTTTAAGT-GCTGCAAATTGAAG
* * * **
4155898 TGTATAAATGTTGTTAATTGATA-
1 TGTTTAAGTGCTGCAAATTGA-AG
*
4155921 TGTTTAAGTGCTGCAAATTTAAG
1 TGTTTAAGTGCTGCAAATTGAAG
* * *
4155944 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
4155967 TGTTTAAGTGCTGCAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
* *
4155990 TGCTT-AGTTGCTGGAAATTG-AG
1 TGTTTAAG-TGCTGCAAATTGAAG
* * *
4156012 ATGTTTTA-TCGCTG-TAATTGAGG
1 -TGTTTAAGT-GCTGCAAATTGAAG
* * * ** **
4156035 TGTATAAATGTTGTTAATTGGGG
1 TGTTTAAGTGCTGCAAATTGAAG
*
4156058 TGTTTAAGTGCTGCAAATTTAAG
1 TGTTTAAGTGCTGCAAATTGAAG
* *** * *
4156081 AGAGGAGGAATGCTGTAAATTGAAG
1 TGTTTA--AGTGCTGCAAATTGAAG
* *
4156106 TGTTTAATTGCTGCAAATTGCAG
1 TGTTTAAGTGCTGCAAATTGAAG
4156129 TGTTTAAGTGCTGCAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
* *
4156152 TGCTT-AGTTGCTGGAAATTG-AG
1 TGTTTAAG-TGCTGCAAATTGAAG
* * *
4156174 ATGTTTTA-TCGCTG-TAATTGAGG
1 -TGTTTAAGT-GCTGCAAATTGAAG
* * * **
4156197 TGTATAAATGTTGTTAATTGATA-
1 TGTTTAAGTGCTGCAAATTGA-AG
*
4156220 TGTTTAAGTGCTGCAAATTTAAG
1 TGTTTAAGTGCTGCAAATTGAAG
* * *
4156243 TGTTTAAATGCTGTAAATTGACG
1 TGTTTAAGTGCTGCAAATTGAAG
4156266 TGTTTAAGTGCTGCAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
*
4156289 TGTTT-AGTTGCTGGAAATTG-AG
1 TGTTTAAG-TGCTGCAAATTGAAG
* * * *
4156311 ATGTTTTA-TCGCCG-TAATTGAGG
1 -TGTTTAAGT-GCTGCAAATTGAAG
* * * ** *
4156334 TGTATAAATGTTGTTAACTGATA-
1 TGTTTAAGTGCTGCAAATTGA-AG
* *
4156357 TGTTTAAGTGTTGCAAATTTAAG
1 TGTTTAAGTGCTGCAAATTGAAG
* *
4156380 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
*
4156403 TGTTTAAGTGCTGCAAATTTAAG
1 TGTTTAAGTGCTGCAAATTGAAG
*
4156426 TGTTTAAGTGCTACAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
* *
4156449 TATTT-AGTTGCTGGAAATTG-AG
1 TGTTTAAG-TGCTGCAAATTGAAG
* *
4156471 ATGTTTTA-TCGCTG-TAATTG-AG
1 -TGTTTAAGT-GCTGCAAATTGAAG
* * * ** *
4156493 TGTGTAAATGTTGTTAATT-AATA
1 TGTTTAAGTGCTGCAAATTGAA-G
*
4156516 TGTTTAAGTGCTG-AAATTTAAG
1 TGTTTAAGTGCTGCAAATTGAAG
* *
4156538 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
4156561 TGTTTAAGTGCTGCAAATTGAAG
1 TGTTTAAGTGCTGCAAATTGAAG
*
4156584 TGTTT-AGTTGCTGAAAATTG-AG
1 TGTTTAAG-TGCTGCAAATTGAAG
* * *
4156606 ATGTTTTA-TCGCTG-TAATTGATG
1 -TGTTTAAGT-GCTGCAAATTGAAG
* * * **
4156629 TGTATAAATGTTGTTAATTGATA-
1 TGTTTAAGTGCTGCAAATTGA-AG
4156652 TG-TTAAGGTGCTGCAAATTGAAG
1 TGTTTAA-GTGCTGCAAATTGAAG
4156675 TGTTTAA
1 TGTTTAA
4156682 ATTTAACTTG
Statistics
Matches: 1215, Mismatches: 232, Indels: 183
0.75 0.14 0.11
Matches are distributed among these distances:
21 8 0.01
22 206 0.17
23 948 0.78
24 37 0.03
25 16 0.01
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (23 bp):
TGTTTAAGTGCTGCAAATTGAAG
Found at i:4155386 original size:160 final size:160
Alignment explanation
Indices: 4155103--4156010 Score: 1380
Period size: 160 Copynumber: 5.7 Consensus size: 160
4155093 AGCAGCATCG
* * * *
4155103 AATGTTGTTAATCGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAGTGCTGCAAATTTAAGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
* * * * *
4155168 TTTAAA-TGTTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGCAGTGTTTAAG-TGCTGCAAATT
66 -TTAAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTT-AGTTGCTGGAAATT
* * * * *
4155231 GA-A-GTGCTTAGTTGCTGGAAATTGAGATGT-TT
129 GAGATGT-TTTA-TCGCT-GTAATTGAGGTGTATA
* ** ** * *
4155263 TATCGCCG-TAATTGAGGTGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGTTGTAAATTGACGT
1 AAT-GTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGT
*
4155327 GTTAAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGCAAATTG
65 GTTAAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTG
4155392 AGATGTTTTATCGCTGTAATTGAGGTGTATA
130 AGATGTTTTATCGCTGTAATTGAGGTGTATA
* *
4155423 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGTTGTAAATTGACGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
4155488 TTAAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
66 TTAAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
4155553 GATGTTTTATCGCTGTAATTGAGGTGTATA
131 GATGTTTTATCGCTGTAATTGAGGTGTATA
*
4155583 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGACGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
* *
4155648 TTTAAGTGCTGCAAATTGAAGTGTTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTGGAAATTG
66 TTAAAGTGCTGCAAATTGAAGTG-TTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTG
*
4155713 AGATGTTTTATCGCCGTAATTGAGGTGTATA
130 AGATGTTTTATCGCTGTAATTGAGGTGTATA
* *
4155744 AATGTTGTTAACTGATATGTTTAAGTGTTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
*
4155809 TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
66 TTAAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
4155874 GATGTTTTATCGCTGTAATTGAGGTGTATA
131 GATGTTTTATCGCTGTAATTGAGGTGTATA
*
4155904 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGTTGTAAATTGAAGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
* * *
4155969 TTTAAGTGCTGCAAATTGAAGTGCTT-AGTTGCTGGAAATTGA
66 TTAAAGTGCTGCAAATTGAAGTGTTTAAG-TGCTGCAAATTGA
4156011 GATGTTTTAT
Statistics
Matches: 699, Mismatches: 40, Indels: 18
0.92 0.05 0.02
Matches are distributed among these distances:
159 22 0.03
160 514 0.74
161 161 0.23
162 2 0.00
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.39
Consensus pattern (160 bp):
AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
TTAAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
GATGTTTTATCGCTGTAATTGAGGTGTATA
Found at i:4155390 original size:137 final size:136
Alignment explanation
Indices: 4155142--4155991 Score: 590
Period size: 137 Copynumber: 6.2 Consensus size: 136
4155132 GCAAATTTAA
* *
4155142 GTGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTGCTGCAAAT
1 GTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGCTGCAAAT
* *
4155207 TGCAGTGTTTAAGTGCTGCAAATTGAAGTGCTT-AGTTGCTGGAAATTGAGATGTTTTATCGCCG
66 TGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAAG-TGCTGCAAATTGA-ATGTTTTATCGCCG
4155271 TAATTGAG
129 TAATTGAG
* *
4155279 GTGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGTTGTAAATTGACGTGTTAAAGTGCTGCAAAT
1 GTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGCTGCAAAT
*
4155344 TGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTT-AGTTGCTGCAAATTGAGATGTTTTATCGCTG
66 TGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAAG-TGCTGCAAATTGA-ATGTTTTATCGCCG
4155408 TAATTGAG
129 TAATTGAG
* * * ** * * * * * *
4155416 GTGTATAAATGTTGTTAATTGATA-TGTTTAAGTGCTGCAAATTTAAGTGTTTAAA-TGTTGTAA
1 GTGTTTAAGTGCTGCAAATTGA-AGTGTTTAAATGTTGTAAATTGAAGTG-TTAAAGTGCTGCAA
* * * * *
4155479 ATTGACGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAA-GTGCTTAGTTGC
64 ATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAAGTGCTGCAAATTGAATGT-TTTA-TCGC
* *
4155543 TGGAAATTGAG
127 -CGTAATTGAG
* * * * * * *
4155554 ATGTTTTA-TCGCTG-TAATTGAGGTGTATAAATGTTGTTAATTGATA-TGTTTAAGTGCTGCAA
1 GTGTTTAAGT-GCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGA-AGTGTTAAAGTGCTGCAA
* * * * *
4155616 ATTTAAGTGTTTAAATGCTGTAAATTGACGTGTTTAAGTGCTGCAAATTGAAGTGTTTTAAGT-G
64 ATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAAGTGCTGCAAATTGAA-TGTTTT-A-TCG
* * *
4155680 CTGCAAATTGAA
126 CCG-TAATTGAG
* * ** * * *
4155692 GTGTTT-AGTTGCTGGAAATTG-AGATGTTT-TATCGCCGT-AATTGAGGTGTATAAA-TGTTGT
1 GTGTTTAAG-TGCTGCAAATTGAAG-TGTTTAAAT-GTTGTAAATTGAAGTGT-TAAAGTGCTGC
* * * * * * * *
4155752 TAACTGATA-TGTTTAAGTGTTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGT
62 AAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGCTTAAGTGCTGCAAATTGAA-TGTTTTA-T
* * *
4155816 -GCTGCAAATTGAA
124 CGCCG-TAATTGAG
* ** * * ** *
4155829 GTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTG-AGATGTTTTA-TCGCTG-TA
1 GTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAG-TGTTAAAGT-GCTGCAA
* * * * ** * * *
4155891 ATTGAGGTGTATAAATGTTGTTAATTGATA-TGTTTAAGTGCTGCAAATTTAAGTGTTTAAAT-G
64 ATTGAAGTGTTTAAGTGCTGCAAATTGA-AGTGCTTAAGTGCTGCAAATTGAA-TGTTT-TATCG
** *
4155954 TTGTAAATTGAA
126 CCGT-AATTGAG
4155966 GTGTTTAAGTGCTGCAAATTGAAGTG
1 GTGTTTAAGTGCTGCAAATTGAAGTG
4155992 CTTAGTTGCT
Statistics
Matches: 589, Mismatches: 92, Indels: 64
0.79 0.12 0.09
Matches are distributed among these distances:
135 2 0.00
136 8 0.01
137 429 0.73
138 128 0.22
139 22 0.04
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.39
Consensus pattern (136 bp):
GTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGCTGCAAAT
TGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAAGTGCTGCAAATTGAATGTTTTATCGCCGTA
ATTGAG
Found at i:4156015 original size:137 final size:137
Alignment explanation
Indices: 4155784--4156149 Score: 545
Period size: 137 Copynumber: 2.7 Consensus size: 137
4155774 CAAATTTAAG
* * * * *
4155784 TGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATT
1 TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATT
4155849 GAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
66 GAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
*
4155914 ATTGATA
131 ATTGAGA
*
4155921 TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTGCTGCAAATT
1 TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATT
4155986 GAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
66 GAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
* *
4156051 ATTGGGG
131 ATTGAGA
* *** *
4156058 TGTTTAAGTGCTGCAAATTTAAGAGAGGAGGAATGCTGTAAATTGAAGTGTTTAATTGCTGCAAA
1 TGTTTAAGTGCTGCAAATTTAAGTGTTTA--AATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAA
* * *
4156123 TTGCAGTGTTTAAG-TGCTGCAAATTGA
64 TTGAAGTGCTT-AGTTGCTGGAAATTGA
4156150 AGTGCTTAGT
Statistics
Matches: 208, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
137 153 0.74
139 53 0.25
140 2 0.01
ACGTcount: A:0.29, C:0.07, G:0.26, T:0.38
Consensus pattern (137 bp):
TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATT
GAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
ATTGAGA
Found at i:4156208 original size:162 final size:160
Alignment explanation
Indices: 4155775--4156309 Score: 589
Period size: 160 Copynumber: 3.3 Consensus size: 160
4155765 TAAGTGTTGC
* * *
4155775 AAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAG-T
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTT-AGTT
* * * * * ** * *
4155839 GCTGCAAATTGA-A-GTGCTTAGTTGCTGGAAATTGAGATGT-TTTATCGCTG-TAATTGAGGTG
65 GCTGGAAATTGAGATGT-TTTA-TCGCT-GTAATTGAGGTGTATAAAT-GTTGTTAATTGAGATG
* * * ** * * *** * *
4155900 TATAAATGTTGTTAATTGATA-TGTTTAAGTGCTGC
126 TTTAAGTGCTGCAAATTTA-AGAGAGGAAATGCTGT
* * *
4155935 AAATTTAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTG
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTG
* *
4156000 CTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGGGGTGTTTAA
66 CTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTTAA
4156065 GTGCTGCAAATTTAAGAGAGGAGGAATGCTGT
131 GTGCTGCAAATTTAAGAGAGGA--AATGCTGT
* *
4156097 AAATTGAAGTGTTTAATTGCTGCAAATTGCAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTG
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTG
*
4156162 CTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAA
66 CTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTTAA
* ***
4156227 GTGCTGCAAATTTAAGTGTTTAAATGCTGT
131 GTGCTGCAAATTTAAGAGAGGAAATGCTGT
* * *
4156257 AAATTGACGTGTTTAAGTGCTGCAAATTGAAGTGTTT-AGTTGCTGGAAATTGA
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAG-TGCTGCAAATTGA
4156310 GATGTTTTAT
Statistics
Matches: 327, Mismatches: 39, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
159 19 0.06
160 156 0.48
161 4 0.01
162 148 0.45
ACGTcount: A:0.29, C:0.07, G:0.25, T:0.39
Consensus pattern (160 bp):
AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTG
CTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTTAA
GTGCTGCAAATTTAAGAGAGGAAATGCTGT
Found at i:4156386 original size:160 final size:158
Alignment explanation
Indices: 4156220--4156604 Score: 601
Period size: 160 Copynumber: 2.4 Consensus size: 158
4156210 TTAATTGATA
* * * * * *
4156220 TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGACGTGTTTAAGTGCTGCAAATT
1 TGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATT
*
4156285 GAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTATCGCCGTAATTGAGGTGTATAAATGTTGTTA
66 GAAGTATTTAGTTGCTGGAAATTGAGATGTTTTATCGCCGTAATTGA-GTGTATAAATGTTGTTA
* *
4156350 ACTGATATGTTTAAGTGTTGCAAATTTAAG
130 ACTAATATGTTTAAGTGCTG-AAATTTAAG
* *
4156380 TGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTTAAGTGTTTAAGTGCTACAAATT
1 TGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATT
* *
4156445 GAAGTATTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGTGTGTAAATGTTGTTAA
66 GAAGTATTTAGTTGCTGGAAATTGAGATGTTTTATCGCCGTAATTGAGTGTATAAATGTTGTTAA
*
4156510 TTAATATGTTTAAGTGCTGAAATTTAAG
131 CTAATATGTTTAAGTGCTGAAATTTAAG
*
4156538 TGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTT-AGTTGCTGAAAAT
1 TGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAG-TGCTGCAAAT
4156602 TGA
65 TGA
4156605 GATGTTTTAT
Statistics
Matches: 207, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
157 2 0.01
158 70 0.34
159 33 0.16
160 102 0.49
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.40
Consensus pattern (158 bp):
TGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATT
GAAGTATTTAGTTGCTGGAAATTGAGATGTTTTATCGCCGTAATTGAGTGTATAAATGTTGTTAA
CTAATATGTTTAAGTGCTGAAATTTAAG
Found at i:4156446 original size:137 final size:137
Alignment explanation
Indices: 4156091--4156431 Score: 583
Period size: 137 Copynumber: 2.5 Consensus size: 137
4156081 AGAGGAGGAA
* * * * * *
4156091 TGCTGTAAATTGAAGTGTTTAATTGCTGCAAATTGCAGTGTTTAAGTGCTGCAAATTGAAGTGCT
1 TGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTT
* *
4156156 TAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATAT
66 TAGTTGCTGGAAATTGAGATGTTTTATCGCCGTAATTGAGGTGTATAAATGTTGTTAACTGATAT
4156221 GTTTAAG
131 GTTTAAG
*
4156228 TGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGACGTGTTTAAGTGCTGCAAATTGAAGTGTT
1 TGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTT
4156293 TAGTTGCTGGAAATTGAGATGTTTTATCGCCGTAATTGAGGTGTATAAATGTTGTTAACTGATAT
66 TAGTTGCTGGAAATTGAGATGTTTTATCGCCGTAATTGAGGTGTATAAATGTTGTTAACTGATAT
4156358 GTTTAAG
131 GTTTAAG
* *
4156365 TGTTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTTAAGTGTT
1 TGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTT
4156430 TA
66 TA
4156432 AGTGCTACAA
Statistics
Matches: 192, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
137 192 1.00
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (137 bp):
TGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTT
TAGTTGCTGGAAATTGAGATGTTTTATCGCCGTAATTGAGGTGTATAAATGTTGTTAACTGATAT
GTTTAAG
Found at i:4156562 original size:135 final size:137
Alignment explanation
Indices: 4156106--4156683 Score: 484
Period size: 137 Copynumber: 4.2 Consensus size: 137
4156096 TAAATTGAAG
* * * * **
4156106 TGTTTAATTGCTGCAAATTGCAGTGTTTAAGTGCTGCAAATTGAAGTGCTT-AGTTGCTGGAAAT
1 TGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAG-TGCTACAAAT
* * * ** * * * * *
4156170 TGAGATGT-TTTA-TCGCTG-TAATTGAGGTGTATAAAT-GTTGTTAATTGATATGTTTAAGTGC
65 TGA-A-GTATTTAGTTGCTGAAAATTGAGATGT-TTTATCGCTG-TAATTGATGTGTATAAATGT
** *
4156231 TGCAAATTTAA-G
126 TGTTAA-TTAATA
* * * * **
4156243 TGTTTAAATGCTGTAAATTGACGTGTTTAAGTGCTGCAAATTGAAGTGTTT-AGTTGCTGGAAAT
1 TGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAG-TGCTACAAAT
* * * * ** * * * * *
4156307 TGAGATGT-TTTA-TCGCCG-TAATTGAGGTGTATAAAT-GTTGTTAACTGATATGTTTAAGTGT
65 TGA-A-GTATTTAGTTGCTGAAAATTGAGATGT-TTTATCGCTG-TAATTGATGTGTATAAATGT
** *
4156368 TGCAAATTTAA-G
126 TGTTAA-TTAATA
* * * *
4156380 TGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTTAAGTGTTTAAGTGCTACAAATT
1 TGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTACAAATT
* *
4156445 GAAGTATTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGA-GTGTGTAAATGTTGTTA
66 GAAGTATTTAGTTGCTGAAAATTGAGATGTTTTATCGCTGTAATTGATGTGTATAAATGTTGTTA
4156509 ATTAATA
131 ATTAATA
* * *
4156516 TGTTTAAGTGCTG-AAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATT
1 TGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTACAAATT
*
4156580 GAAGTGTTTAGTTGCTGAAAATTGAGATGTTTTATCGCTGTAATTGATGTGTATAAATGTTGTTA
66 GAAGTATTTAGTTGCTGAAAATTGAGATGTTTTATCGCTGTAATTGATGTGTATAAATGTTGTTA
*
4156645 ATTGATA
131 ATTAATA
4156652 TG-TTAAGGTGCTGCAAATTGAAGTGTTTAAAT
1 TGTTTAA-GTGCTGCAAATTGAAGTGTTTAAAT
4156684 TTAACTTGTT
Statistics
Matches: 395, Mismatches: 37, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
135 101 0.26
136 60 0.15
137 219 0.55
138 15 0.04
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.41
Consensus pattern (137 bp):
TGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTACAAATT
GAAGTATTTAGTTGCTGAAAATTGAGATGTTTTATCGCTGTAATTGATGTGTATAAATGTTGTTA
ATTAATA
Found at i:4156707 original size:135 final size:134
Alignment explanation
Indices: 4156380--4156683 Score: 457
Period size: 135 Copynumber: 2.2 Consensus size: 134
4156370 CAAATTTAAG
* * * *
4156380 TGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTTAAGTGTTTAAGTGCTACAAATT
1 TGTTTAAGTGCTG-AAATTGAAGTGTTTAAAT-CTGTAAATTGAAGTGTTTAAGTGCTACAAATT
* *
4156445 GAAGTATTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGTGTGTAAATGTTGTTAA
64 GAAGTATTTAGTTGCTGAAAATTGAGATGTTTTATCGCTGTAATTGAGTGTATAAATGTTGTTAA
4156510 TTAATA
129 TTAATA
* *
4156516 TGTTTAAGTGCTGAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTG
1 TGTTTAAGTGCTGAAATTGAAGTGTTTAAAT-CTGTAAATTGAAGTGTTTAAGTGCTACAAATTG
*
4156581 AAGTGTTTAGTTGCTGAAAATTGAGATGTTTTATCGCTGTAATTGATGTGTATAAATGTTGTTAA
65 AAGTATTTAGTTGCTGAAAATTGAGATGTTTTATCGCTGTAATTGA-GTGTATAAATGTTGTTAA
*
4156646 TTGATA
129 TTAATA
4156652 TG-TTAAGGTGCTGCAAATTGAAGTGTTTAAAT
1 TGTTTAA-GTGCTG-AAATTGAAGTGTTTAAAT
4156684 TTAACTTGTT
Statistics
Matches: 154, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
135 95 0.62
136 42 0.27
137 17 0.11
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.41
Consensus pattern (134 bp):
TGTTTAAGTGCTGAAATTGAAGTGTTTAAATCTGTAAATTGAAGTGTTTAAGTGCTACAAATTGA
AGTATTTAGTTGCTGAAAATTGAGATGTTTTATCGCTGTAATTGAGTGTATAAATGTTGTTAATT
AATA
Found at i:4157378 original size:43 final size:43
Alignment explanation
Indices: 4157331--4157494 Score: 247
Period size: 43 Copynumber: 3.8 Consensus size: 43
4157321 TTTTCGTGAC
* ** *
4157331 CTTTAGTGGCGTTTTTGGGAAAAGCGCCACTAAAGGTCTTGGT
1 CTTTAGCGGCGTTTGCGGGAAAAGCGCCGCTAAAGGTCTTGGT
*
4157374 CTTTAGCGGCGTTTGCGGGAGAAGCGCCGCTAAAGGTCTTGGT
1 CTTTAGCGGCGTTTGCGGGAAAAGCGCCGCTAAAGGTCTTGGT
* * *
4157417 CTTTAGCGGCGTTTGCGGGAGAAGCGCCGCTAAAGATCCTGGT
1 CTTTAGCGGCGTTTGCGGGAAAAGCGCCGCTAAAGGTCTTGGT
*
4157460 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
1 CTTTAGCGGCGTTTGCGGGAAAAGCGCCGCTAAAG
4157495 TTAGCGACGC
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 112 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGCGGGAAAAGCGCCGCTAAAGGTCTTGGT
Found at i:4157811 original size:9 final size:9
Alignment explanation
Indices: 4157793--4157868 Score: 98
Period size: 9 Copynumber: 8.4 Consensus size: 9
4157783 TTTGGTTAAA
4157793 AATTAACCG
1 AATTAACCG
*
4157802 AATTACCCG
1 AATTAACCG
4157811 AATTAACCG
1 AATTAACCG
* *
4157820 AGTTACCCG
1 AATTAACCG
4157829 AATTAACCG
1 AATTAACCG
*
4157838 AATTACCCG
1 AATTAACCG
*
4157847 AATTAACCA
1 AATTAACCG
*
4157856 AATTAACCA
1 AATTAACCG
4157865 AATT
1 AATT
4157869 GAATCACTAC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 58 1.00
ACGTcount: A:0.42, C:0.25, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:4157868 original size:18 final size:18
Alignment explanation
Indices: 4157793--4157860 Score: 118
Period size: 18 Copynumber: 3.8 Consensus size: 18
4157783 TTTGGTTAAA
4157793 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
*
4157811 AATTAACCGAGTTACCCG
1 AATTAACCGAATTACCCG
4157829 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
*
4157847 AATTAACCAAATTA
1 AATTAACCGAATTA
4157861 ACCAAATTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.41, C:0.25, G:0.10, T:0.24
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:4157905 original size:8 final size:8
Alignment explanation
Indices: 4157892--4157918 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
4157882 ATTAAATTAT
4157892 TTTTAGAC
1 TTTTAGAC
4157900 TTTTAGAC
1 TTTTAGAC
4157908 TTTTAGAC
1 TTTTAGAC
4157916 TTT
1 TTT
4157919 AGTTTTAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.56
Consensus pattern (8 bp):
TTTTAGAC
Found at i:4158021 original size:18 final size:18
Alignment explanation
Indices: 4157981--4158024 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4157971 TAATTTTATG
**
4157981 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
4157999 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
4158017 CTTGGGTT
1 ATTGGGTT
4158025 TAGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:4159372 original size:35 final size:35
Alignment explanation
Indices: 4159326--4159404 Score: 131
Period size: 35 Copynumber: 2.3 Consensus size: 35
4159316 AAGAAACTAA
*
4159326 TGAAATCCATCCATAGAATACGCAAATGTTAACAT
1 TGAAAACCATCCATAGAATACGCAAATGTTAACAT
*
4159361 TGAAAACCATCCATAGCATACGCAAATGTTAACAT
1 TGAAAACCATCCATAGAATACGCAAATGTTAACAT
*
4159396 TGAAGACCA
1 TGAAAACCA
4159405 CACACTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.43, C:0.22, G:0.13, T:0.23
Consensus pattern (35 bp):
TGAAAACCATCCATAGAATACGCAAATGTTAACAT
Found at i:4160477 original size:24 final size:24
Alignment explanation
Indices: 4160448--4160494 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4160438 ATTTAAAATT
4160448 TTTATAACTTT-TTTATGAATTTTG
1 TTTAT-ACTTTGTTTATGAATTTTG
* *
4160472 TTTATATTTTGTTTATGATTTTT
1 TTTATACTTTGTTTATGAATTTT
4160495 TAAATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.68
Consensus pattern (24 bp):
TTTATACTTTGTTTATGAATTTTG
Found at i:4160494 original size:13 final size:12
Alignment explanation
Indices: 4160459--4160493 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
4160449 TTATAACTTT
4160459 TTTATGAATTTTG
1 TTTATG-ATTTTG
4160472 TTTAT-ATTTTG
1 TTTATGATTTTG
4160483 TTTATGATTTT
1 TTTATGATTTT
4160494 TTAAATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.52
12 5 0.24
13 5 0.24
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.69
Consensus pattern (12 bp):
TTTATGATTTTG
Found at i:4165987 original size:19 final size:19
Alignment explanation
Indices: 4165971--4166010 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
4165961 TAATAATATA
4165971 CTTGTTCCTCGACAATACT
1 CTTGTTCCTCGACAATACT
4165990 CTTGTTCCTCGACAATACT
1 CTTGTTCCTCGACAATACT
4166009 CT
1 CT
4166011 ATGGTTCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.33, G:0.10, T:0.38
Consensus pattern (19 bp):
CTTGTTCCTCGACAATACT
Found at i:4167907 original size:11 final size:11
Alignment explanation
Indices: 4167893--4167919 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
4167883 AGATAATTGT
4167893 TATTTAATTAA
1 TATTTAATTAA
4167904 TATTTAATTAA
1 TATTTAATTAA
4167915 TATTT
1 TATTT
4167920 TTAGTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATTTAATTAA
Found at i:4169699 original size:62 final size:56
Alignment explanation
Indices: 4169598--4169750 Score: 162
Period size: 57 Copynumber: 2.6 Consensus size: 56
4169588 ATCTCTGAAA
* * **
4169598 AAGAATTTATGGTAAAAAGGATTTAGCCCGGACGGGTGATCCTATCCTGATATAGTTCTCCCG
1 AAGAATATATGG-AAAAA-GATTTAGCCCGGACGAGTGAT-C--T--TGATATAGCCCTCCCG
*
4169661 AAGAATATATGTGAAAAAGATCTAGCCCGGACGAGTGATCTTGATATAGCCCTCCCG
1 AAGAATATATG-GAAAAAGATTTAGCCCGGACGAGTGATCTTGATATAGCCCTCCCG
* *
4169718 AAGAATATGTGGAAAATGGATTTAGCCCGGACG
1 AAGAATATATGGAAAA-AGATTTAGCCCGGACG
4169751 GTAATCCGAA
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
56 5 0.06
57 38 0.47
59 1 0.01
61 1 0.01
62 19 0.24
63 15 0.19
64 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (56 bp):
AAGAATATATGGAAAAAGATTTAGCCCGGACGAGTGATCTTGATATAGCCCTCCCG
Found at i:4169987 original size:67 final size:67
Alignment explanation
Indices: 4169879--4170008 Score: 242
Period size: 67 Copynumber: 1.9 Consensus size: 67
4169869 GTTTATATTA
4169879 CAGGGGATTTAGCCAGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTTT
1 CAGGGGATTTAGCCAGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTTT
4169944 TG
66 TG
* *
4169946 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGTGGGAGTGTGCTCT
1 CAGGGGATTTAGCCAGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCT
4170009 CTGAATTGGA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.21, C:0.18, G:0.35, T:0.27
Consensus pattern (67 bp):
CAGGGGATTTAGCCAGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTTT
TG
Found at i:4178129 original size:24 final size:24
Alignment explanation
Indices: 4178097--4178146 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4178087 CCATTAAGAA
4178097 AAACTTGAGAA-ACAAGAAAGCTTT
1 AAACTTGAGAAGA-AAGAAAGCTTT
*
4178121 AAACTTGAGAAGAAGGAAAGCTTT
1 AAACTTGAGAAGAAAGAAAGCTTT
4178145 AA
1 AA
4178147 GAAATCCGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.50, C:0.10, G:0.20, T:0.20
Consensus pattern (24 bp):
AAACTTGAGAAGAAAGAAAGCTTT
Found at i:4178267 original size:38 final size:38
Alignment explanation
Indices: 4178216--4178293 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
4178206 GACAAAGGCG
4178216 GTTTAGAAGTATTGGATTAGGAAAAGGAAATCTCATTT
1 GTTTAGAAGTATTGGATTAGGAAAAGGAAATCTCATTT
4178254 GTTTAGAAGTATTGGATTAGGAAAAGGAAATCTCATTT
1 GTTTAGAAGTATTGGATTAGGAAAAGGAAATCTCATTT
4178292 GT
1 GT
4178294 CAAAGGGCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (38 bp):
GTTTAGAAGTATTGGATTAGGAAAAGGAAATCTCATTT
Done.